diff options
Diffstat (limited to 'src')
| -rw-r--r-- | src/H5D.c | 131 | ||||
| -rw-r--r-- | src/H5Distore.c | 323 | ||||
| -rw-r--r-- | src/H5Dseq.c | 274 | ||||
| -rw-r--r-- | src/H5Farray.c | 175 | ||||
| -rw-r--r-- | src/H5Fistore.c | 323 | ||||
| -rw-r--r-- | src/H5Fpkg.h | 27 | ||||
| -rw-r--r-- | src/H5Fprivate.h | 61 | ||||
| -rw-r--r-- | src/H5Fseq.c | 274 | ||||
| -rw-r--r-- | src/H5Ppkg.h | 10 | ||||
| -rw-r--r-- | src/H5Pprivate.h | 4 | ||||
| -rw-r--r-- | src/H5S.c | 88 | ||||
| -rw-r--r-- | src/H5Sall.c | 38 | ||||
| -rw-r--r-- | src/H5Shyper.c | 138 | ||||
| -rw-r--r-- | src/H5Smpio.c | 30 | ||||
| -rw-r--r-- | src/H5Spkg.h | 8 | ||||
| -rw-r--r-- | src/H5Spoint.c | 56 | ||||
| -rw-r--r-- | src/H5Sprivate.h | 27 | ||||
| -rw-r--r-- | src/H5Sselect.c | 2 |
18 files changed, 836 insertions, 1153 deletions
@@ -2233,7 +2233,6 @@ H5D_read(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *mem_space, #ifdef H5S_DEBUG H5_timer_t timer; #endif - H5O_pline_t pline; /* I/O Pipeline info */ H5O_efl_t efl; /* External File List info */ H5O_fill_t fill; /* Fill value info */ H5D_fill_time_t fill_time; /* When to write the fill values */ @@ -2303,8 +2302,6 @@ H5D_read(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *mem_space, HGOTO_ERROR (H5E_ARGS, H5E_BADVALUE, FAIL, "src and dest data spaces have different sizes"); /* Retrieve dataset properties */ - if(H5P_get(dc_plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) - HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't retrieve data pipeline"); if(H5P_fill_value_defined(dc_plist, &fill_status)<0) HGOTO_ERROR(H5E_PLIST, H5E_CANTGET, FAIL, "can't tell if fill value defined"); if((fill_status==H5D_FILL_VALUE_DEFAULT || fill_status==H5D_FILL_VALUE_USER_DEFINED) @@ -2385,7 +2382,7 @@ H5D_read(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *mem_space, /* Sanity check dataset, then read it */ assert(dataset->layout.addr!=HADDR_UNDEF || efl.nused>0); status = (sconv->read)(dataset->ent.file, &(dataset->layout), - &pline, &fill, &efl, H5T_get_size(dataset->type), + dc_plist, H5T_get_size(dataset->type), file_space, mem_space, dxpl_id, buf/*out*/); #ifdef H5S_DEBUG H5_timer_end(&(sconv->stats[1].read_timer), &timer); @@ -2492,7 +2489,7 @@ H5D_read(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *mem_space, /* Sanity check that space is allocated, then read data from it */ assert(dataset->layout.addr!=HADDR_UNDEF || efl.nused > 0); n = (sconv->f->gath)(dataset->ent.file, &(dataset->layout), - &pline, &fill, &efl, src_type_size, file_space, + dc_plist, src_type_size, file_space, &file_iter, smine_nelmts, dxpl_id, tconv_buf/*out*/); #ifdef H5S_DEBUG @@ -2651,7 +2648,6 @@ H5D_write(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *mem_space, #ifdef H5S_DEBUG H5_timer_t timer; #endif - H5O_pline_t pline; /* I/O Pipeline info */ H5O_efl_t efl; /* External File List info */ H5O_fill_t fill; /* Fill value info */ H5D_fill_time_t fill_time; /* When to write the fill values */ @@ -2740,8 +2736,6 @@ H5D_write(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *mem_space, HGOTO_ERROR (H5E_ARGS, H5E_BADVALUE, FAIL, "src and dest data spaces have different sizes"); /* Retrieve dataset properties */ - if(H5P_get(dc_plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) - HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't retrieve data pipeline"); if(H5P_get(dc_plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't retrieve fill value"); if(H5P_get(dc_plist, H5D_CRT_FILL_TIME_NAME, &fill_time) < 0) @@ -2814,9 +2808,9 @@ H5D_write(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *mem_space, #ifdef H5S_DEBUG H5_timer_begin(&timer); #endif - status = (sconv->write)(dataset->ent.file, &(dataset->layout), &pline, - &fill, &efl, H5T_get_size(dataset->type), file_space, - mem_space, dxpl_id, buf/*out*/); + status = (sconv->write)(dataset->ent.file, &(dataset->layout), + dc_plist, H5T_get_size(dataset->type), + file_space, mem_space, dxpl_id, buf); #ifdef H5S_DEBUG H5_timer_end(&(sconv->stats[0].write_timer), &timer); sconv->stats[0].write_nbytes += nelmts * H5T_get_size(mem_type); @@ -2932,8 +2926,8 @@ H5D_write(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *mem_space, #ifdef H5S_DEBUG H5_timer_begin(&timer); #endif - n = (sconv->f->gath)(dataset->ent.file, &(dataset->layout), &pline, - &fill, &efl, dst_type_size, file_space, + n = (sconv->f->gath)(dataset->ent.file, &(dataset->layout), + dc_plist, dst_type_size, file_space, &bkg_iter, smine_nelmts, dxpl_id, bkg_buf/*out*/); @@ -2959,7 +2953,7 @@ H5D_write(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *mem_space, H5_timer_begin(&timer); #endif status = (sconv->f->scat)(dataset->ent.file, &(dataset->layout), - &pline, &fill, &efl, dst_type_size, + dc_plist, dst_type_size, file_space, &file_iter, smine_nelmts, dxpl_id, tconv_buf); @@ -3205,8 +3199,6 @@ H5D_init_storage(H5D_t *dset, const H5S_t *space) haddr_t addr; /* Offset in dataset */ void *buf = NULL; /* Buffer for fill value writing */ H5O_fill_t fill; /* Fill value information */ - H5O_efl_t efl; /* External File List information */ - H5O_pline_t pline; /* I/O pipeline information */ H5P_genplist_t *plist; /* Property list */ herr_t ret_value = SUCCEED; /* Return value */ @@ -3219,10 +3211,6 @@ H5D_init_storage(H5D_t *dset, const H5S_t *space) HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not a dataset creation property list"); if(H5P_get(plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get fill value"); - if(H5P_get(plist, H5D_CRT_EXT_FILE_LIST_NAME, &efl) < 0) - HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get external file list"); - if(H5P_get(plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) - HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get data pipeline"); switch (dset->layout.type) { case H5D_CONTIGUOUS: @@ -3258,8 +3246,7 @@ H5D_init_storage(H5D_t *dset, const H5S_t *space) while (npoints>0) { size = MIN(ptsperbuf, npoints) * fill.size; if (H5F_seq_write(dset->ent.file, H5P_DATASET_XFER_DEFAULT, - &(dset->layout), &pline, &fill, &efl, space, - fill.size, size, addr, buf)<0) + &(dset->layout), plist, space, fill.size, size, addr, buf)<0) HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "unable to write fill value to dataset"); npoints -= MIN(ptsperbuf, npoints); addr += size; @@ -3283,8 +3270,8 @@ H5D_init_storage(H5D_t *dset, const H5S_t *space) dim[ndims] = dset->layout.dim[ndims]; ndims++; - if (H5F_istore_allocate(dset->ent.file, - H5P_DATASET_XFER_DEFAULT, &(dset->layout), dim, &pline, &fill)<0) + if (H5F_istore_allocate(dset->ent.file, H5P_DATASET_XFER_DEFAULT, + &(dset->layout), dim, plist)<0) HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "unable to allocate all chunks of dataset"); } /* end if */ #endif /*H5_HAVE_PARALLEL*/ @@ -3884,18 +3871,14 @@ H5Dset_extent(hid_t dset_id, const hsize_t *size) /* Check args */ if(H5I_DATASET != H5I_get_type(dset_id) - || NULL == (dset = H5I_object(dset_id))) { + || NULL == (dset = H5I_object(dset_id))) HRETURN_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not a dataset"); - } - if(!size) { + if(!size) HRETURN_ERROR(H5E_ARGS, H5E_BADVALUE, FAIL, "no size specified"); - } /* Private function */ - if(H5D_set_extent(dset, size) < 0) { - HRETURN_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, - "unable to set extend dataset"); - } + if(H5D_set_extent(dset, size) < 0) + HRETURN_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "unable to set extend dataset"); FUNC_LEAVE(SUCCEED); } @@ -3925,12 +3908,9 @@ H5D_set_extent(H5D_t *dset, const hsize_t *size) { hsize_t curr_dims[H5O_LAYOUT_NDIMS]; /* Current dimension sizes */ int rank; /* Dataspace # of dimensions */ - herr_t changed; herr_t ret_value = FAIL; H5S_t *space = NULL; H5P_genplist_t *plist; - H5O_fill_t fill; - H5O_pline_t pline; int u; int shrink = 0; @@ -3944,19 +3924,15 @@ H5D_set_extent(H5D_t *dset, const hsize_t *size) * Get the data space *------------------------------------------------------------------------- */ - - if(NULL == (space = H5S_read(&(dset->ent)))) { - HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, - "unable to read data space info from dset header"); - } + if(NULL == (space = H5S_read(&(dset->ent)))) + HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "unable to read data space info from dset header"); /*------------------------------------------------------------------------- * Check if we are shrinking in any of the dimensions *------------------------------------------------------------------------- */ if((rank = H5S_get_simple_extent_dims(space, curr_dims, NULL)) < 0) - HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, - "can't get dataset dimensions"); + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get dataset dimensions"); for(u = 0; u < rank; u++) { if(size[u] < curr_dims[u]) { @@ -3969,43 +3945,20 @@ H5D_set_extent(H5D_t *dset, const hsize_t *size) * Modify the size of the data space *------------------------------------------------------------------------- */ - - if((changed = H5S_set_extent(space, size)) < 0) { - HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, - "unable to modify size of data space"); - } + if(H5S_set_extent(space, size) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "unable to modify size of data space"); /*------------------------------------------------------------------------- - * Modify the dataset storage if changed space + * Modify the dataset storage *------------------------------------------------------------------------- */ + /* Save the new dataspace in the file if necessary */ + if(H5S_modify(&(dset->ent), space) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, "unable to update file with new dataspace"); - if(changed > 0) { - /* Save the new dataspace in the file if necessary */ - if(H5S_modify(&(dset->ent), space) < 0) { - HGOTO_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, - "unable to update file with new dataspace"); - } - - /* Initialize the new parts of the dset */ - if(NULL == (plist = H5I_object(dset->dcpl_id))) { - HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, - "not a dset creation property list"); - } - if(H5P_get(plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) { - HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, - "can't get fill value"); - } - if(H5D_CONTIGUOUS == dset->layout.type && fill.buf) { - HGOTO_ERROR(H5E_DATASET, H5E_UNSUPPORTED, FAIL, - "unable to select fill value region"); - } - if(H5D_init_storage(dset, space) < 0) { - HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, - "unable to initialize dset with fill value"); - } - - } /* end if changed */ + /* Initialize the new parts of the dset */ + if(H5D_init_storage(dset, space) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "unable to initialize dataset storage"); /*------------------------------------------------------------------------- @@ -4013,37 +3966,29 @@ H5D_set_extent(H5D_t *dset, const hsize_t *size) * This removal takes place only in case we are shrinking the dateset *------------------------------------------------------------------------- */ - - if(changed > 0 && shrink && H5D_CHUNKED == dset->layout.type) { - + if(shrink && H5D_CHUNKED == dset->layout.type) { #if defined (PVN) H5F_istore_dump_btree(dset->ent.file, stdout, dset->layout.ndims, dset->layout.addr); #endif - if(H5F_istore_prune_by_extent(dset->ent.file, &dset->layout, - space) < 0) { - HRETURN_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, - "unable to remove chunks "); - } + /* Remove excess chunks */ + if(H5F_istore_prune_by_extent(dset->ent.file, &dset->layout, space) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, "unable to remove chunks "); #if defined (PVN) H5F_istore_dump_btree(dset->ent.file, stdout, dset->layout.ndims, dset->layout.addr); #endif - if(H5P_get(plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) { - HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get pipeline"); - } - - - if(H5F_istore_initialize_by_extent(dset->ent.file, &dset->layout, - &pline, &fill, space) < 0) { - HRETURN_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, - "unable to initialize chunks "); - } + /* Get the dataset creation property list */ + if(NULL == (plist = H5I_object(dset->dcpl_id))) + HGOTO_ERROR(H5E_ARGS, H5E_BADTYPE, FAIL, "not a dset creation property list"); - } + /* Reset the elements outsize the new dimensions, but in existing chunks */ + if(H5F_istore_initialize_by_extent(dset->ent.file, &dset->layout, plist, space) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, "unable to initialize chunks "); + } /* end if */ ret_value = SUCCEED; diff --git a/src/H5Distore.c b/src/H5Distore.c index 54b2fd2..1c2b137 100644 --- a/src/H5Distore.c +++ b/src/H5Distore.c @@ -1774,7 +1774,7 @@ H5F_istore_unlock(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, */ herr_t H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, - const H5O_pline_t *pline, const H5O_fill_t *fill, + H5P_genplist_t *dc_plist, const hsize_t size_m[], const hssize_t offset_m[], const hssize_t offset_f[], const hsize_t size[], void *buf) { @@ -1792,6 +1792,9 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, unsigned idx_hint=0; /*cache index hint */ hsize_t chunk_size; /* Bytes in chunk */ haddr_t chunk_addr; /* Chunk address on disk */ + H5O_pline_t pline; /* I/O pipeline information */ + H5O_fill_t fill; /* Fill value information */ + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER(H5F_istore_read, FAIL); @@ -1806,6 +1809,12 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, assert(size); assert(buf); + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get fill value"); + if(H5P_get(dc_plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get data pipeline"); + /* Compute chunk size */ for (u=0, chunk_size=1; u<layout->ndims; u++) chunk_size *= layout->dim[u]; @@ -1832,7 +1841,8 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, } /* Loop over all chunks */ - while (1) { + carry=0; + while (carry==0) { for (u=0, naccessed=1; u<layout->ndims; u++) { /* The location and size of the chunk being accessed */ assert(layout->dim[u] < HSSIZET_MAX); @@ -1860,7 +1870,7 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, * for the chunk has been defined, then don't load the chunk into the * cache, just read the data from it directly. */ - if ((chunk_size>f->shared->rdcc_nbytes && pline->nfilters==0 && + if ((chunk_size>f->shared->rdcc_nbytes && pline.nfilters==0 && chunk_addr!=HADDR_UNDEF) #ifdef H5_HAVE_PARALLEL @@ -1876,8 +1886,8 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, #ifdef H5_HAVE_PARALLEL /* Additional sanity checks when operating in parallel */ - if (chunk_addr==HADDR_UNDEF || pline->nfilters>0) - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to locate raw data chunk"); + if (chunk_addr==HADDR_UNDEF || pline.nfilters>0) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to locate raw data chunk"); #endif /* H5_HAVE_PARALLEL */ /* @@ -1890,29 +1900,24 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, for (u=l.ndims; u-- > 0; /*void*/) l.dim[u] = layout->dim[u]; l.addr = chunk_addr; - if (H5F_arr_read(f, H5P_DATASET_XFER_DEFAULT, &l, pline, fill, NULL/*no efl*/, + if (H5F_arr_read(f, H5P_DATASET_XFER_DEFAULT, &l, dc_plist, sub_size, size_m, sub_offset_m, offset_wrt_chunk, buf)<0) - HRETURN_ERROR (H5E_IO, H5E_READERROR, FAIL, "unable to read raw data from file"); + HGOTO_ERROR (H5E_IO, H5E_READERROR, FAIL, "unable to read raw data from file"); } /* end if */ else { /* * Lock the chunk, transfer data to the application, then unlock * the chunk. */ - if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, pline, fill, - chunk_offset, FALSE, &idx_hint))) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "unable to read raw data chunk"); - } + if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, &pline, &fill, + chunk_offset, FALSE, &idx_hint))) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "unable to read raw data chunk"); H5V_hyper_copy(layout->ndims, sub_size, size_m, sub_offset_m, (void*)buf, layout->dim, offset_wrt_chunk, chunk); H5_CHECK_OVERFLOW(naccessed,hsize_t,size_t); - if (H5F_istore_unlock(f, dxpl_id, layout, pline, FALSE, - chunk_offset, &idx_hint, chunk, - (size_t)naccessed)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "unable to unlock raw data chunk"); - } + if (H5F_istore_unlock(f, dxpl_id, layout, &pline, FALSE, + chunk_offset, &idx_hint, chunk, (size_t)naccessed)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "unable to unlock raw data chunk"); } /* end else */ /* Increment indices */ @@ -1922,10 +1927,10 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, else carry = 0; } - if (carry) - break; } - FUNC_LEAVE(SUCCEED); + +done: + FUNC_LEAVE(ret_value); } @@ -1951,7 +1956,7 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, */ herr_t H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, - const H5O_pline_t *pline, const H5O_fill_t *fill, + H5P_genplist_t *dc_plist, const hsize_t size_m[], const hssize_t offset_m[], const hssize_t offset_f[], const hsize_t size[], const void *buf) @@ -1969,6 +1974,9 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, unsigned idx_hint=0; hsize_t chunk_size, naccessed; haddr_t chunk_addr; /* Chunk address on disk */ + H5O_pline_t pline; /* I/O pipeline information */ + H5O_fill_t fill; /* Fill value information */ + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER(H5F_istore_write, FAIL); @@ -1983,6 +1991,12 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, assert(size); assert(buf); + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get fill value"); + if(H5P_get(dc_plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get data pipeline"); + /* Compute chunk size */ for (u=0, chunk_size=1; u<layout->ndims; u++) chunk_size *= layout->dim[u]; @@ -2010,7 +2024,8 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, /* Loop over all chunks */ - while (1) { + carry=0; + while (carry==0) { for (u=0, naccessed=1; u<layout->ndims; u++) { /* The location and size of the chunk being accessed */ assert(layout->dim[u] < HSSIZET_MAX); @@ -2038,7 +2053,7 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, * for the chunk has been defined, then don't load the chunk into the * cache, just write the data to it directly. */ - if ((chunk_size>f->shared->rdcc_nbytes && pline->nfilters==0 && + if ((chunk_size>f->shared->rdcc_nbytes && pline.nfilters==0 && chunk_addr!=HADDR_UNDEF) #ifdef H5_HAVE_PARALLEL @@ -2054,8 +2069,8 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, #ifdef H5_HAVE_PARALLEL /* Additional sanity check when operating in parallel */ - if (chunk_addr==HADDR_UNDEF || pline->nfilters>0) - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to locate raw data chunk"); + if (chunk_addr==HADDR_UNDEF || pline.nfilters>0) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to locate raw data chunk"); #endif /* H5_HAVE_PARALLEL */ /* @@ -2068,24 +2083,24 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, for (u=l.ndims; u-- > 0; /*void*/) l.dim[u] = layout->dim[u]; l.addr = chunk_addr; - if (H5F_arr_write(f, H5P_DATASET_XFER_DEFAULT, &l, pline, fill, NULL/*no efl*/, + if (H5F_arr_write(f, H5P_DATASET_XFER_DEFAULT, &l, dc_plist, sub_size, size_m, sub_offset_m, offset_wrt_chunk, buf)<0) - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to write raw data to file"); + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to write raw data to file"); } /* end if */ else { /* * Lock the chunk, copy from application to chunk, then unlock the * chunk. */ - if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, pline, fill, + if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, &pline, &fill, chunk_offset, (hbool_t)(naccessed==chunk_size), &idx_hint))) - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to read raw data chunk"); + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to read raw data chunk"); H5V_hyper_copy(layout->ndims, sub_size, layout->dim, offset_wrt_chunk, chunk, size_m, sub_offset_m, buf); H5_CHECK_OVERFLOW(naccessed,hsize_t,size_t); - if (H5F_istore_unlock(f, dxpl_id, layout, pline, TRUE, + if (H5F_istore_unlock(f, dxpl_id, layout, &pline, TRUE, chunk_offset, &idx_hint, chunk, (size_t)naccessed)<0) - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "uanble to unlock raw data chunk"); + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "uanble to unlock raw data chunk"); } /* end else */ /* Increment indices */ @@ -2095,11 +2110,10 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, else carry = 0; } - if (carry) - break; - } + } /* end while */ - FUNC_LEAVE(SUCCEED); +done: + FUNC_LEAVE(ret_value); } @@ -2403,33 +2417,34 @@ done: */ herr_t H5F_istore_allocate(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, - const hsize_t *space_dim, const H5O_pline_t *pline, - const H5O_fill_t *fill) + const hsize_t *space_dim, H5P_genplist_t *dc_plist) { int i, carry; - unsigned u; - hssize_t chunk_offset[H5O_LAYOUT_NDIMS]; - uint8_t *chunk=NULL; - unsigned idx_hint=0; - hsize_t chunk_size; -#ifdef AKC - H5F_istore_ud1_t udata; -#endif + unsigned u; + hssize_t chunk_offset[H5O_LAYOUT_NDIMS]; + uint8_t *chunk=NULL; + unsigned idx_hint=0; + hsize_t chunk_size; + H5O_pline_t pline; /* I/O pipeline information */ + H5O_fill_t fill; /* Fill value information */ + herr_t ret_value=SUCCEED; /* Return value */ FUNC_ENTER(H5F_istore_allocate, FAIL); -#ifdef AKC - printf("Enter %s:\n", FUNC); -#endif /* Check args */ assert(f); assert(space_dim); - assert(pline); assert(layout && H5D_CHUNKED==layout->type); assert(layout->ndims>0 && layout->ndims<=H5O_LAYOUT_NDIMS); assert(H5F_addr_defined(layout->addr)); + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get fill value"); + if(H5P_get(dc_plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get data pipeline"); + /* * Setup indice to go through all chunks. (Future improvement * should allocate only chunks that have no file space assigned yet. @@ -2437,65 +2452,37 @@ H5F_istore_allocate(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, for (u=0, chunk_size=1; u<layout->ndims; u++) { chunk_offset[u]=0; chunk_size *= layout->dim[u]; - } + } /* end for */ /* Loop over all chunks */ - while (1) { - -#ifdef AKC - printf("Checking allocation for chunk( "); - for (u=0; u<layout->ndims; u++){ - printf("%ld ", chunk_offset[u]); - } - printf(")\n"); -#endif -#ifdef NO - if (H5F_istore_get_addr(f, layout, chunk_offset, &udata)<0) { -#endif - /* No file space assigned yet. Allocate it. */ - /* The following needs improvement like calling the */ - /* allocation directly rather than indirectly using the */ - /* allocation effect in the unlock process. */ + carry=0; + while (carry==0) { + /* No file space assigned yet. Allocate it. */ + /* The following needs improvement like calling the */ + /* allocation directly rather than indirectly using the */ + /* allocation effect in the unlock process. */ -#ifdef AKC - printf("need allocation\n"); -#endif - /* - * Lock the chunk, copy from application to chunk, then unlock the - * chunk. - */ + /* + * Lock the chunk, copy from application to chunk, then unlock the + * chunk. + */ #ifdef H5_HAVE_PARALLEL - /* rky 981207 Serialize access to this critical region. */ - if (SUCCEED!= H5FD_mpio_wait_for_left_neighbor(f->shared->lf)) { - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, - "unable to lock the data chunk"); - } + /* rky 981207 Serialize access to this critical region. */ + if (SUCCEED!= H5FD_mpio_wait_for_left_neighbor(f->shared->lf)) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to lock the data chunk"); #endif - if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, pline, - fill, chunk_offset, FALSE, &idx_hint))) { - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, - "unable to read raw data chunk"); - } - H5_CHECK_OVERFLOW(chunk_size,hsize_t,size_t); - if (H5F_istore_unlock(f, dxpl_id, layout, pline, TRUE, - chunk_offset, &idx_hint, chunk, (size_t)chunk_size)<0) { - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, - "uanble to unlock raw data chunk"); - } + if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, &pline, + &fill, chunk_offset, FALSE, &idx_hint))) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to read raw data chunk"); + + H5_CHECK_OVERFLOW(chunk_size,hsize_t,size_t); + if (H5F_istore_unlock(f, dxpl_id, layout, &pline, TRUE, + chunk_offset, &idx_hint, chunk, (size_t)chunk_size)<0) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "uanble to unlock raw data chunk"); #ifdef H5_HAVE_PARALLEL - if (SUCCEED!= H5FD_mpio_signal_right_neighbor(f->shared->lf)) { - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, - "unable to unlock the data chunk"); - } -#endif -#ifdef NO - } else { -#ifdef AKC - printf("NO need for allocation\n"); - HDfprintf(stdout, "udata.addr=%a\n", udata.addr); -#endif - } + if (SUCCEED!= H5FD_mpio_signal_right_neighbor(f->shared->lf)) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to unlock the data chunk"); #endif /* Increment indices */ @@ -2506,10 +2493,8 @@ H5F_istore_allocate(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, } else { carry = 0; } - } - if (carry) - break; - } + } /* end for */ + } /* end while */ #ifdef H5_HAVE_PARALLEL /* @@ -2522,12 +2507,12 @@ H5F_istore_allocate(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, * removed, when H5D_init_storage is changed to call H5MF_alloc directly * to allocate space, instead of calling H5F_istore_unlock. */ - if (MPI_Barrier(H5FD_mpio_communicator(f->shared->lf))) { - HRETURN_ERROR(H5E_INTERNAL, H5E_MPI, FAIL, "MPI_Barrier failed"); - } + if (MPI_Barrier(H5FD_mpio_communicator(f->shared->lf))) + HGOTO_ERROR(H5E_INTERNAL, H5E_MPI, FAIL, "MPI_Barrier failed"); #endif - FUNC_LEAVE(SUCCEED); +done: + FUNC_LEAVE(ret_value); } @@ -2632,7 +2617,7 @@ H5F_istore_allocate(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, *------------------------------------------------------------------------- */ herr_t -H5F_istore_prune_by_extent(H5F_t *f, H5O_layout_t *layout, H5S_t * space) +H5F_istore_prune_by_extent(H5F_t *f, const H5O_layout_t *layout, const H5S_t * space) { H5F_rdcc_t *rdcc = &(f->shared->rdcc); /*raw data chunk cache */ H5F_rdcc_ent_t *ent = NULL, *next = NULL; /*cache entry */ @@ -2652,16 +2637,13 @@ H5F_istore_prune_by_extent(H5F_t *f, H5O_layout_t *layout, H5S_t * space) /* Go get the rank & dimensions */ if(H5S_get_simple_extent_dims(space, curr_dims, NULL) < 0) - HRETURN_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, - "can't get dataset dimensions"); - + HRETURN_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get dataset dimensions"); /*------------------------------------------------------------------------- * Figure out what chunks are no longer in use for the specified extent * and release them from the linked list raw data cache *------------------------------------------------------------------------- */ - for(ent = rdcc->head; ent; ent = next) { next = ent->next; @@ -2830,8 +2812,8 @@ H5F_istore_remove(H5F_t *f, haddr_t addr, void *_lt_key /*in,out */ , *------------------------------------------------------------------------- */ herr_t -H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, - H5O_pline_t * pline, H5O_fill_t * fill, H5S_t * space) +H5F_istore_initialize_by_extent(H5F_t *f, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, const H5S_t * space) { hid_t dxpl_id; /*dataset transfer property list */ uint8_t *chunk = NULL; /*the file chunk */ @@ -2853,6 +2835,9 @@ H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, int i, carry; /*counters */ unsigned u; int found = 0; /*initialize this entry */ + H5O_pline_t pline; /* I/O pipeline information */ + H5O_fill_t fill; /* Fill value information */ + herr_t ret_value=SUCCEED; /* Return value */ FUNC_ENTER(H5F_istore_initialize_by_extent, FAIL); @@ -2862,20 +2847,24 @@ H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, assert(layout->ndims > 0 && layout->ndims <= H5O_LAYOUT_NDIMS); assert(H5F_addr_defined(layout->addr)); assert(space); - assert(pline); - assert(fill); + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get fill value"); + if(H5P_get(dc_plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get data pipeline"); + + /* Reset start & count arrays */ HDmemset(start, 0, sizeof(start)); HDmemset(count, 0, sizeof(count)); /* Go get the rank & dimensions */ if((rank = H5S_get_simple_extent_dims(space, curr_dims, NULL)) < 0) - HRETURN_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, - "can't get dataset dimensions"); + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get dataset dimensions"); - for(i = 0; i < rank; i++) { + /* Copy current dimensions */ + for(i = 0; i < rank; i++) size[i] = curr_dims[i]; - } size[i] = layout->dim[i]; elm_size = size[i]; @@ -2883,15 +2872,10 @@ H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, dxpl_id = H5P_DATASET_XFER_DEFAULT; /* Create a data space for a chunk & set the extent */ - if(NULL == (space_chunk = H5S_create(H5S_SIMPLE))) { - HRETURN_ERROR(H5E_DATASPACE, H5E_CANTCREATE, FAIL, - "can't create simple dataspace"); - } - if(H5S_set_extent_simple(space_chunk, (unsigned)rank, layout->dim, - NULL) < 0) { - HRETURN_ERROR(H5E_DATASPACE, H5E_CANTINIT, FAIL, - "can't set dimensions"); - } + if(NULL == (space_chunk = H5S_create(H5S_SIMPLE))) + HGOTO_ERROR(H5E_DATASPACE, H5E_CANTCREATE, FAIL, "can't create simple dataspace"); + if(H5S_set_extent_simple(space_chunk, (unsigned)rank, layout->dim, NULL) < 0) + HGOTO_ERROR(H5E_DATASPACE, H5E_CANTINIT, FAIL, "can't set dimensions"); /* * Set up multi-dimensional counters (idx_min, idx_max, and idx_cur) and @@ -2902,87 +2886,68 @@ H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, idx_min[u] = 0; idx_max[u] = (size[u] - 1) / layout->dim[u] + 1; idx_cur[u] = idx_min[u]; - } + } /* end for */ /* Loop over all chunks */ - while(1) { + carry=0; + while(carry==0) { for(u = 0, naccessed = 1; u < layout->ndims; u++) { /* The location and size of the chunk being accessed */ chunk_offset[u] = idx_cur[u] * (hssize_t)(layout->dim[u]); - sub_size[u] = - MIN((idx_cur[u] + 1) * layout->dim[u], + sub_size[u] = MIN((idx_cur[u] + 1) * layout->dim[u], size[u]) - chunk_offset[u]; naccessed *= sub_size[u]; - } + } /* end for */ /* * Figure out what chunks have to be initialized. These are the chunks where the database * extent boundary is within the chunk */ - for(u = 0, found = 0; u < layout->ndims - 1; u++) { end_chunk = chunk_offset[u] + layout->dim[u]; if(end_chunk > size[u]) { found = 1; break; } - } + } /* end for */ if(found) { - if(NULL == (chunk = - H5F_istore_lock(f, dxpl_id, layout, pline, fill, - chunk_offset, FALSE, &idx_hint))) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "unable to read raw data chunk"); - } + if(NULL == (chunk = H5F_istore_lock(f, dxpl_id, layout, &pline, &fill, + chunk_offset, FALSE, &idx_hint))) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "unable to read raw data chunk"); - if(H5S_select_all(space_chunk) < 0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "unable to select space"); - } + if(H5S_select_all(space_chunk) < 0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "unable to select space"); - for(i = 0; i < rank; i++) { - count[i] = - MIN((idx_cur[i] + 1) * layout->dim[i], - size[i] - chunk_offset[i]); - } + for(i = 0; i < rank; i++) + count[i] = MIN((idx_cur[i] + 1) * layout->dim[i], size[i] - chunk_offset[i]); #if defined (H5F_ISTORE_DEBUG) HDfputs("cache:initialize:offset:[", stdout); - for(u = 0; u < layout->ndims - 1; u++) { + for(u = 0; u < layout->ndims - 1; u++) HDfprintf(stdout, "%s%Hd", u ? ", " : "", chunk_offset[u]); - } HDfputs("]", stdout); HDfputs(":count:[", stdout); - for(u = 0; u < layout->ndims - 1; u++) { + for(u = 0; u < layout->ndims - 1; u++) HDfprintf(stdout, "%s%Hd", u ? ", " : "", count[u]); - } HDfputs("]\n", stdout); #endif if(H5S_select_hyperslab(space_chunk, H5S_SELECT_NOTB, start, NULL, - count, NULL) < 0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "unable to select hyperslab"); - } + count, NULL) < 0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "unable to select hyperslab"); /* Fill the selection in the memory buffer */ - if(H5S_select_fill(fill->buf, fill->size, space_chunk, chunk) < 0) { - HRETURN_ERROR(H5E_DATASET, H5E_CANTENCODE, FAIL, - "filling selection failed"); - } - - if(H5F_istore_unlock(f, dxpl_id, layout, pline, TRUE, - chunk_offset, &idx_hint, chunk, - (size_t)naccessed) < 0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "unable to unlock raw data chunk"); - } + if(H5S_select_fill(fill.buf, fill.size, space_chunk, chunk) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTENCODE, FAIL, "filling selection failed"); - } /*found */ + if(H5F_istore_unlock(f, dxpl_id, layout, &pline, TRUE, + chunk_offset, &idx_hint, chunk, (size_t)naccessed) < 0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "unable to unlock raw data chunk"); + } /*found */ /* Increment indices */ for(i = layout->ndims - 1, carry = 1; i >= 0 && carry; --i) { @@ -2990,14 +2955,12 @@ H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, idx_cur[i] = idx_min[i]; else carry = 0; - } - if(carry) - break; - - } + } /* end for */ + } /* end while */ +done: if(space_chunk) H5S_close(space_chunk); - FUNC_LEAVE(SUCCEED); + FUNC_LEAVE(ret_value); } diff --git a/src/H5Dseq.c b/src/H5Dseq.c index 20c71a7..2714174 100644 --- a/src/H5Dseq.c +++ b/src/H5Dseq.c @@ -57,10 +57,10 @@ static int interface_initialize_g = 0; *------------------------------------------------------------------------- */ herr_t -H5F_seq_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, const H5O_fill_t *fill, - const struct H5O_efl_t *efl, const H5S_t *file_space, size_t elmt_size, - size_t seq_len, hsize_t file_offset, void *buf/*out*/) +H5F_seq_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, + const H5S_t *file_space, size_t elmt_size, + size_t seq_len, hsize_t file_offset, void *buf/*out*/) { FUNC_ENTER(H5F_seq_read, FAIL); @@ -69,7 +69,7 @@ H5F_seq_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, assert(layout); assert(buf); - if (H5F_seq_readv(f, dxpl_id, layout, pline, fill, efl, file_space, elmt_size, 1, &seq_len, &file_offset, buf)<0) + if (H5F_seq_readv(f, dxpl_id, layout, dc_plist, file_space, elmt_size, 1, &seq_len, &file_offset, buf)<0) HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "vector read failed"); FUNC_LEAVE(SUCCEED); @@ -98,10 +98,10 @@ H5F_seq_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, *------------------------------------------------------------------------- */ herr_t -H5F_seq_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, const H5O_fill_t *fill, - const struct H5O_efl_t *efl, const H5S_t *file_space, size_t elmt_size, - size_t seq_len, hsize_t file_offset, const void *buf) +H5F_seq_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, + const H5S_t *file_space, size_t elmt_size, + size_t seq_len, hsize_t file_offset, const void *buf) { FUNC_ENTER(H5F_seq_write, FAIL); @@ -110,7 +110,7 @@ H5F_seq_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, assert(layout); assert(buf); - if (H5F_seq_writev(f, dxpl_id, layout, pline, fill, efl, file_space, elmt_size, 1, &seq_len, &file_offset, buf)<0) + if (H5F_seq_writev(f, dxpl_id, layout, dc_plist, file_space, elmt_size, 1, &seq_len, &file_offset, buf)<0) HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "vector write failed"); FUNC_LEAVE(SUCCEED); @@ -141,11 +141,11 @@ H5F_seq_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, *------------------------------------------------------------------------- */ herr_t -H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, const H5O_fill_t *fill, - const struct H5O_efl_t *efl, const H5S_t *file_space, size_t elmt_size, - size_t nseq, size_t seq_len_arr[], hsize_t file_offset_arr[], - void *_buf/*out*/) +H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, + const H5S_t *file_space, size_t elmt_size, + size_t nseq, size_t seq_len_arr[], hsize_t file_offset_arr[], + void *_buf/*out*/) { unsigned char *real_buf=(unsigned char *)_buf; /* Local pointer to buffer to fill */ unsigned char *buf; /* Local pointer to buffer to fill */ @@ -163,10 +163,12 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, unsigned u; /*counters */ size_t v; /*counters */ int i,j; /*counters */ + struct H5O_efl_t efl; /* External File List info */ #ifdef H5_HAVE_PARALLEL H5FD_mpio_xfer_t xfer_mode=H5FD_MPIO_INDEPENDENT; H5P_genplist_t *plist=NULL; /* Property list */ #endif + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER(H5F_seq_readv, FAIL); @@ -186,17 +188,17 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Get the plist structure */ if(NULL == (plist = H5I_object(dxpl_id))) - HRETURN_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); + HGOTO_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); /* Get the driver ID */ if(H5P_get(plist, H5D_XFER_VFL_ID_NAME, &driver_id)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); /* Check if we are using the MPIO driver */ if(H5FD_MPIO==driver_id) { /* Get the driver information */ if(H5P_get(plist, H5D_XFER_VFL_INFO_NAME, &dx)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); /* Check if we are not using independent I/O */ if(H5FD_MPIO_INDEPENDENT!=dx->xfer_mode) @@ -206,54 +208,49 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Collective MPIO access is unsupported for non-contiguous datasets */ if (H5D_CONTIGUOUS!=layout->type && H5FD_MPIO_COLLECTIVE==xfer_mode) - HRETURN_ERROR (H5E_DATASET, H5E_READERROR, FAIL, "collective access on non-contiguous datasets not supported yet"); + HGOTO_ERROR (H5E_DATASET, H5E_READERROR, FAIL, "collective access on non-contiguous datasets not supported yet"); #endif + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_EXT_FILE_LIST_NAME, &efl) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get EFL value"); + switch (layout->type) { case H5D_CONTIGUOUS: - /* Filters cannot be used for contiguous data. */ - if (pline && pline->nfilters>0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "filters are not allowed for contiguous data"); - } - - /* Read directly from file if the dataset is in an external file */ - if (efl && efl->nused>0) { + if (efl.nused>0) { /* Iterate through the sequence vectors */ for(v=0; v<nseq; v++) { #ifdef H5_HAVE_PARALLEL - if (H5FD_MPIO_COLLECTIVE==xfer_mode) { - /* - * Currently supports same number of collective access. Need to - * be changed LATER to combine all reads into one collective MPIO - * call. - */ - unsigned long max, min, temp; - - temp = seq_len_arr[v]; - assert(temp==seq_len_arr[v]); /* verify no overflow */ - MPI_Allreduce(&temp, &max, 1, MPI_UNSIGNED_LONG, MPI_MAX, - H5FD_mpio_communicator(f->shared->lf)); - MPI_Allreduce(&temp, &min, 1, MPI_UNSIGNED_LONG, MPI_MIN, - H5FD_mpio_communicator(f->shared->lf)); + if (H5FD_MPIO_COLLECTIVE==xfer_mode) { + /* + * Currently supports same number of collective access. Need to + * be changed LATER to combine all reads into one collective MPIO + * call. + */ + unsigned long max, min, temp; + + temp = seq_len_arr[v]; + assert(temp==seq_len_arr[v]); /* verify no overflow */ + MPI_Allreduce(&temp, &max, 1, MPI_UNSIGNED_LONG, MPI_MAX, + H5FD_mpio_communicator(f->shared->lf)); + MPI_Allreduce(&temp, &min, 1, MPI_UNSIGNED_LONG, MPI_MIN, + H5FD_mpio_communicator(f->shared->lf)); #ifdef AKC - printf("seq_len=%lu, min=%lu, max=%lu\n", temp, min, max); + printf("seq_len=%lu, min=%lu, max=%lu\n", temp, min, max); #endif - if (max != min) - HRETURN_ERROR(H5E_DATASET, H5E_READERROR, FAIL, - "collective access with unequal number of blocks not supported yet"); - } + if (max != min) + HGOTO_ERROR(H5E_DATASET, H5E_READERROR, FAIL, + "collective access with unequal number of blocks not supported yet"); + } #endif /* Note: We can't use data sieve buffers for datasets in external files * because the 'addr' of all external files is set to 0 (above) and * all datasets in external files would alias to the same set of * file offsets, totally mixing up the data sieve buffer information. -QAK */ - if (H5O_efl_read(f, efl, file_offset_arr[v], seq_len_arr[v], real_buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "external data read failed"); - } + if (H5O_efl_read(f, &efl, file_offset_arr[v], seq_len_arr[v], real_buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "external data read failed"); /* Increment offset in buffer */ real_buf += seq_len_arr[v]; @@ -264,10 +261,8 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, max_data *= layout->dim[u]; /* Pass along the vector of sequences to read */ - if (H5F_contig_readv(f, max_data, H5FD_MEM_DRAW, layout->addr, nseq, seq_len_arr, file_offset_arr, dxpl_id, real_buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "block read failed"); - } + if (H5F_contig_readv(f, max_data, H5FD_MEM_DRAW, layout->addr, nseq, seq_len_arr, file_offset_arr, dxpl_id, real_buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "block read failed"); } /* end else */ break; @@ -275,13 +270,12 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* * This method is unable to access external raw data files */ - if (efl && efl->nused>0) { - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, - "chunking and external files are mutually exclusive"); - } + if (efl.nused>0) + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "chunking and external files are mutually exclusive"); + /* Compute the file offset coordinates and hyperslab size */ if((ndims=H5S_get_simple_extent_dims(file_space,dset_dims,NULL))<0) - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unable to retrieve dataspace dimensions"); + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unable to retrieve dataspace dimensions"); /* Build the array of cumulative hyperslab sizes */ /* (And set the memory offset to zero) */ @@ -340,11 +334,10 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Read in the partial hyperslab */ - if (H5F_istore_read(f, dxpl_id, layout, pline, fill, + if (H5F_istore_read(f, dxpl_id, layout, dc_plist, hslab_size, mem_offset, coords, hslab_size, - buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); - } + buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); /* Increment the buffer offset */ buf=(unsigned char *)buf+(partial_size*elmt_size); @@ -401,10 +394,9 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Read the full hyperslab in */ - if (H5F_istore_read(f, dxpl_id, layout, pline, fill, - hslab_size, mem_offset, coords, hslab_size, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); - } + if (H5F_istore_read(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); /* Increment the buffer offset */ buf=(unsigned char *)buf+(full_size*elmt_size); @@ -448,11 +440,9 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Read in the partial hyperslab */ - if (H5F_istore_read(f, dxpl_id, layout, pline, - fill, hslab_size, mem_offset, coords, - hslab_size, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); - } + if (H5F_istore_read(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); /* Increment the buffer offset */ buf=(unsigned char *)buf+(partial_size*elmt_size); @@ -484,11 +474,9 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Read in the partial hyperslab */ - if (H5F_istore_read(f, dxpl_id, layout, pline, fill, - hslab_size, mem_offset, coords, hslab_size, - buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); - } + if (H5F_istore_read(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); /* Double-check the amount read in */ assert(seq_len==partial_size); @@ -503,10 +491,11 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, default: assert("not implemented yet" && 0); - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); } /* end switch() */ - FUNC_LEAVE(SUCCEED); +done: + FUNC_LEAVE(ret_value); } /* H5F_seq_readv() */ @@ -534,11 +523,11 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, *------------------------------------------------------------------------- */ herr_t -H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, const H5O_fill_t *fill, - const struct H5O_efl_t *efl, const H5S_t *file_space, size_t elmt_size, - size_t nseq, size_t seq_len_arr[], hsize_t file_offset_arr[], - const void *_buf) +H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, + const H5S_t *file_space, size_t elmt_size, + size_t nseq, size_t seq_len_arr[], hsize_t file_offset_arr[], + const void *_buf) { const unsigned char *real_buf=(const unsigned char *)_buf; /* Local pointer to buffer to fill */ const unsigned char *buf; /* Local pointer to buffer to fill */ @@ -556,10 +545,12 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, unsigned u; /*counters */ size_t v; /*counters */ int i,j; /*counters */ + struct H5O_efl_t efl; /* External File List info */ #ifdef H5_HAVE_PARALLEL H5FD_mpio_xfer_t xfer_mode=H5FD_MPIO_INDEPENDENT; H5P_genplist_t *plist=NULL; /* Property list */ #endif + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER(H5F_seq_writev, FAIL); @@ -579,17 +570,17 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Get the plist structure */ if(NULL == (plist = H5I_object(dxpl_id))) - HRETURN_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); + HGOTO_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); /* Get the driver ID */ if(H5P_get(plist, H5D_XFER_VFL_ID_NAME, &driver_id)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); /* Check if we are using the MPIO driver */ if(H5FD_MPIO==driver_id) { /* Get the driver information */ if(H5P_get(plist, H5D_XFER_VFL_INFO_NAME, &dx)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); /* Check if we are not using independent I/O */ if(H5FD_MPIO_INDEPENDENT!=dx->xfer_mode) @@ -599,56 +590,50 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Collective MPIO access is unsupported for non-contiguous datasets */ if (H5D_CONTIGUOUS!=layout->type && H5FD_MPIO_COLLECTIVE==xfer_mode) { - HRETURN_ERROR (H5E_DATASET, H5E_WRITEERROR, FAIL, + HGOTO_ERROR (H5E_DATASET, H5E_WRITEERROR, FAIL, "collective access on non-contiguous datasets not supported yet"); } #endif + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_EXT_FILE_LIST_NAME, &efl) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get EFL value"); + switch (layout->type) { case H5D_CONTIGUOUS: - /* Filters cannot be used for contiguous data. */ - if (pline && pline->nfilters>0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "filters are not allowed for contiguous data"); - } - - /* Write directly to file if the dataset is in an external file */ - if (efl && efl->nused>0) { + if (efl.nused>0) { /* Iterate through the sequence vectors */ for(v=0; v<nseq; v++) { #ifdef H5_HAVE_PARALLEL - if (H5FD_MPIO_COLLECTIVE==xfer_mode) { - /* - * Currently supports same number of collective access. Need to - * be changed LATER to combine all reads into one collective MPIO - * call. - */ - unsigned long max, min, temp; - - temp = seq_len_arr[v]; - assert(temp==seq_len_arr[v]); /* verify no overflow */ - MPI_Allreduce(&temp, &max, 1, MPI_UNSIGNED_LONG, MPI_MAX, - H5FD_mpio_communicator(f->shared->lf)); - MPI_Allreduce(&temp, &min, 1, MPI_UNSIGNED_LONG, MPI_MIN, - H5FD_mpio_communicator(f->shared->lf)); + if (H5FD_MPIO_COLLECTIVE==xfer_mode) { + /* + * Currently supports same number of collective access. Need to + * be changed LATER to combine all reads into one collective MPIO + * call. + */ + unsigned long max, min, temp; + + temp = seq_len_arr[v]; + assert(temp==seq_len_arr[v]); /* verify no overflow */ + MPI_Allreduce(&temp, &max, 1, MPI_UNSIGNED_LONG, MPI_MAX, + H5FD_mpio_communicator(f->shared->lf)); + MPI_Allreduce(&temp, &min, 1, MPI_UNSIGNED_LONG, MPI_MIN, + H5FD_mpio_communicator(f->shared->lf)); #ifdef AKC - printf("seq_len=%lu, min=%lu, max=%lu\n", temp, min, max); + printf("seq_len=%lu, min=%lu, max=%lu\n", temp, min, max); #endif - if (max != min) - HRETURN_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, - "collective access with unequal number of blocks not supported yet"); - } + if (max != min) + HGOTO_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, "collective access with unequal number of blocks not supported yet"); + } #endif /* Note: We can't use data sieve buffers for datasets in external files * because the 'addr' of all external files is set to 0 (above) and * all datasets in external files would alias to the same set of * file offsets, totally mixing up the data sieve buffer information. -QAK */ - if (H5O_efl_write(f, efl, file_offset_arr[v], seq_len_arr[v], real_buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "external data write failed"); - } + if (H5O_efl_write(f, &efl, file_offset_arr[v], seq_len_arr[v], real_buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "external data write failed"); /* Increment offset in buffer */ real_buf += seq_len_arr[v]; @@ -659,10 +644,8 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, max_data *= layout->dim[u]; /* Pass along the vector of sequences to write */ - if (H5F_contig_writev(f, max_data, H5FD_MEM_DRAW, layout->addr, nseq, seq_len_arr, file_offset_arr, dxpl_id, real_buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "block write failed"); - } + if (H5F_contig_writev(f, max_data, H5FD_MEM_DRAW, layout->addr, nseq, seq_len_arr, file_offset_arr, dxpl_id, real_buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "block write failed"); } /* end else */ break; @@ -670,13 +653,12 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* * This method is unable to access external raw data files */ - if (efl && efl->nused>0) { - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, - "chunking and external files are mutually exclusive"); - } + if (efl.nused>0) + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "chunking and external files are mutually exclusive"); + /* Compute the file offset coordinates and hyperslab size */ if((ndims=H5S_get_simple_extent_dims(file_space,dset_dims,NULL))<0) - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unable to retrieve dataspace dimensions"); + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unable to retrieve dataspace dimensions"); /* Build the array of cumulative hyperslab sizes */ /* (And set the memory offset to zero) */ @@ -735,11 +717,9 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Write out the partial hyperslab */ - if (H5F_istore_write(f, dxpl_id, layout, pline, fill, - hslab_size, mem_offset,coords, hslab_size, - buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); - } + if (H5F_istore_write(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset,coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); /* Increment the buffer offset */ buf=(const unsigned char *)buf+(partial_size*elmt_size); @@ -796,10 +776,9 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Write the full hyperslab in */ - if (H5F_istore_write(f, dxpl_id, layout, pline, fill, - hslab_size, mem_offset, coords, hslab_size, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); - } + if (H5F_istore_write(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); /* Increment the buffer offset */ buf=(const unsigned char *)buf+(full_size*elmt_size); @@ -843,11 +822,9 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Write out the partial hyperslab */ - if (H5F_istore_write(f, dxpl_id, layout, pline, - fill, hslab_size, mem_offset, coords, - hslab_size, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); - } + if (H5F_istore_write(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); /* Increment the buffer offset */ buf=(const unsigned char *)buf+(partial_size*elmt_size); @@ -879,11 +856,9 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Write out the final partial hyperslab */ - if (H5F_istore_write(f, dxpl_id, layout, pline, fill, - hslab_size, mem_offset, coords, hslab_size, - buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); - } + if (H5F_istore_write(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); /* Double-check the amount read in */ assert(seq_len==partial_size); @@ -898,9 +873,10 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, default: assert("not implemented yet" && 0); - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); } /* end switch() */ - FUNC_LEAVE(SUCCEED); +done: + FUNC_LEAVE(ret_value); } /* H5F_seq_writev() */ diff --git a/src/H5Farray.c b/src/H5Farray.c index 58d8558..6469c05 100644 --- a/src/H5Farray.c +++ b/src/H5Farray.c @@ -53,8 +53,9 @@ static int interface_initialize_g = 0; herr_t H5F_arr_create (H5F_t *f, struct H5O_layout_t *layout/*in,out*/) { - unsigned u; - hsize_t nbytes; + unsigned u; + hsize_t nbytes; + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER (H5F_arr_create, FAIL); @@ -69,27 +70,24 @@ H5F_arr_create (H5F_t *f, struct H5O_layout_t *layout/*in,out*/) for (u=0, nbytes=1; u<layout->ndims; u++) nbytes *= layout->dim[u]; assert (nbytes>0); - if (HADDR_UNDEF==(layout->addr=H5MF_alloc(f, H5FD_MEM_DRAW, nbytes))) { - HRETURN_ERROR (H5E_IO, H5E_NOSPACE, FAIL, - "unable to reserve file space"); - } + if (HADDR_UNDEF==(layout->addr=H5MF_alloc(f, H5FD_MEM_DRAW, nbytes))) + HGOTO_ERROR (H5E_IO, H5E_NOSPACE, FAIL, "unable to reserve file space"); break; case H5D_CHUNKED: /* Create the root of the B-tree that describes chunked storage */ - if (H5F_istore_create (f, layout/*out*/)<0) { - HRETURN_ERROR (H5E_IO, H5E_CANTINIT, FAIL, - "unable to initialize chunked storage"); - } + if (H5F_istore_create (f, layout/*out*/)<0) + HGOTO_ERROR (H5E_IO, H5E_CANTINIT, FAIL, "unable to initialize chunked storage"); break; default: assert ("not implemented yet" && 0); - HRETURN_ERROR (H5E_IO, H5E_UNSUPPORTED, FAIL, + HGOTO_ERROR (H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); - } + } /* end switch */ - FUNC_LEAVE (SUCCEED); +done: + FUNC_LEAVE (ret_value); } @@ -127,11 +125,10 @@ H5F_arr_create (H5F_t *f, struct H5O_layout_t *layout/*in,out*/) *------------------------------------------------------------------------- */ herr_t -H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, const H5O_fill_t *fill, - const struct H5O_efl_t *efl, const hsize_t _hslab_size[], - const hsize_t mem_size[], const hssize_t mem_offset[], - const hssize_t file_offset[], void *_buf/*out*/) +H5F_arr_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, const hsize_t _hslab_size[], + const hsize_t mem_size[], const hssize_t mem_offset[], + const hssize_t file_offset[], void *_buf/*out*/) { uint8_t *buf = (uint8_t*)_buf; /*cast for arithmetic */ hssize_t file_stride[H5O_LAYOUT_NDIMS]; /*strides through file */ @@ -148,13 +145,15 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, int j; /*counters */ unsigned u; /*counters */ hbool_t carray; /*carry for subtraction */ + struct H5O_efl_t efl; /* External File List info */ #ifdef H5_HAVE_PARALLEL H5FD_mpio_xfer_t xfer_mode=H5FD_MPIO_INDEPENDENT; H5P_genplist_t *plist=NULL; /* Property list */ #endif #ifdef COALESCE_READS - hsize_t gather_reads; /* # of MPIO reads to gather */ + hsize_t gather_reads; /* # of MPIO reads to gather */ #endif + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER(H5F_arr_read, FAIL); @@ -181,17 +180,17 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Get the plist structure */ if(NULL == (plist = H5I_object(dxpl_id))) - HRETURN_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); + HGOTO_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); /* Get the driver ID */ if(H5P_get(plist, H5D_XFER_VFL_ID_NAME, &driver_id)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); /* Check if we are using the MPIO driver */ if(H5FD_MPIO==driver_id) { /* Get the driver information */ if(H5P_get(plist, H5D_XFER_VFL_INFO_NAME, &dx)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); /* Check if we are not using independent I/O */ if(H5FD_MPIO_INDEPENDENT!=dx->xfer_mode) @@ -201,7 +200,7 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Collective MPIO access is unsupported for non-contiguous datasets */ if (H5D_CONTIGUOUS!=layout->type && H5FD_MPIO_COLLECTIVE==xfer_mode) - HRETURN_ERROR (H5E_DATASET, H5E_READERROR, FAIL, "collective access on non-contiguous datasets not supported yet"); + HGOTO_ERROR (H5E_DATASET, H5E_READERROR, FAIL, "collective access on non-contiguous datasets not supported yet"); #endif #ifdef QAK { @@ -216,6 +215,10 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, } #endif /* QAK */ + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_EXT_FILE_LIST_NAME, &efl) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get EFL value"); + switch (layout->type) { case H5D_CONTIGUOUS: ndims = layout->ndims; @@ -223,21 +226,11 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, * Offsets must not be negative for this type of storage. */ for (u=0; u<ndims; u++) { - if (mem_offset[u]<0 || file_offset[u]<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "negative offsets are not valid"); - } + if (mem_offset[u]<0 || file_offset[u]<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "negative offsets are not valid"); } /* - * Filters cannot be used for contiguous data. - */ - if (pline && pline->nfilters>0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "filters are not allowed for contiguous data"); - } - - /* * Calculate the strides needed to walk through the array on disk * and memory. Optimize the strides to result in the fewest number of * I/O requests. @@ -256,7 +249,7 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, */ H5V_vector_cpy(ndims, idx, hslab_size); nelmts = H5V_vector_reduce_product(ndims, hslab_size); - if (efl && efl->nused>0) { + if (efl.nused>0) { addr = 0; } else { addr = layout->addr; @@ -276,7 +269,7 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, * memory. */ #ifdef H5_HAVE_PARALLEL - if (H5FD_MPIO_COLLECTIVE==xfer_mode){ + if (H5FD_MPIO_COLLECTIVE==xfer_mode) { /* * Currently supports same number of collective access. Need to * be changed LATER to combine all reads into one collective MPIO @@ -294,9 +287,7 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, printf("nelmts=%lu, min=%lu, max=%lu\n", temp, min, max); #endif if (max != min) - HRETURN_ERROR(H5E_DATASET, H5E_READERROR, FAIL, - "collective access with unequal number of " - "blocks not supported yet"); + HGOTO_ERROR(H5E_DATASET, H5E_READERROR, FAIL, "collective access with unequal number of blocks not supported yet"); } #endif @@ -309,7 +300,7 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, for (z=0, gather_reads = nelmts - 1; z<nelmts; z++, gather_reads--) { /* Track the number of reads to gather */ if(H5P_set(plist, H5D_XFER_GATHER_READS_NAME, &gather_reads)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve gather reads"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve gather reads"); #else for (z=0; z<nelmts; z++) { #endif @@ -320,18 +311,14 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, * all datasets in external files would alias to the same set of * file offsets, totally mixing up the data sieve buffer information. -QAK */ - if (efl && efl->nused>0) { + if (efl.nused>0) { H5_CHECK_OVERFLOW(elmt_size,hsize_t,size_t); - if (H5O_efl_read(f, efl, addr, (size_t)elmt_size, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "external data read failed"); - } + if (H5O_efl_read(f, &efl, addr, (size_t)elmt_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "external data read failed"); } else { H5_CHECK_OVERFLOW(elmt_size,hsize_t,size_t); - if (H5F_contig_read(f, max_data, H5FD_MEM_DRAW, addr, (size_t)elmt_size, dxpl_id, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "block read failed"); - } + if (H5F_contig_read(f, max_data, H5FD_MEM_DRAW, addr, (size_t)elmt_size, dxpl_id, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "block read failed"); } /* end else */ /* Decrement indices and advance pointers */ @@ -354,21 +341,22 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* * This method is unable to access external raw data files */ - if (efl && efl->nused>0) - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "chunking and external files are mutually exclusive"); + if (efl.nused>0) + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "chunking and external files are mutually exclusive"); /* Go get the data from the chunks */ - if (H5F_istore_read(f, dxpl_id, layout, pline, fill, mem_size, + if (H5F_istore_read(f, dxpl_id, layout, dc_plist, mem_size, mem_offset, file_offset, hslab_size, buf)<0) - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); break; default: assert("not implemented yet" && 0); - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); } - FUNC_LEAVE(SUCCEED); +done: + FUNC_LEAVE(ret_value); } @@ -406,12 +394,11 @@ H5F_arr_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, *------------------------------------------------------------------------- */ herr_t -H5F_arr_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, const struct H5O_efl_t *efl, - const hsize_t _hslab_size[], const hsize_t mem_size[], - const hssize_t mem_offset[], const hssize_t file_offset[], - const void *_buf) +H5F_arr_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, + const hsize_t _hslab_size[], const hsize_t mem_size[], + const hssize_t mem_offset[], const hssize_t file_offset[], + const void *_buf) { const uint8_t *buf = (const uint8_t *)_buf; /*cast for arithmetic */ hssize_t file_stride[H5O_LAYOUT_NDIMS]; /*strides through file */ @@ -428,10 +415,12 @@ H5F_arr_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, int j; /*counters */ unsigned u; /*counters */ hbool_t carray; /*carry for subtraction */ + struct H5O_efl_t efl; /* External File List info */ #ifdef H5_HAVE_PARALLEL H5FD_mpio_xfer_t xfer_mode=H5FD_MPIO_INDEPENDENT; H5P_genplist_t *plist=NULL; /* Property list */ #endif + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER(H5F_arr_write, FAIL); @@ -458,17 +447,17 @@ H5F_arr_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Get the plist structure */ if(NULL == (plist = H5I_object(dxpl_id))) - HRETURN_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); + HGOTO_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); /* Get the driver ID */ if(H5P_get(plist, H5D_XFER_VFL_ID_NAME, &driver_id)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); /* Check if we are using the MPIO driver */ if(H5FD_MPIO==driver_id) { /* Get the driver information */ if(H5P_get(plist, H5D_XFER_VFL_INFO_NAME, &dx)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); /* Check if we are not using independent I/O */ if(H5FD_MPIO_INDEPENDENT!=dx->xfer_mode) @@ -477,7 +466,7 @@ H5F_arr_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, } if (H5D_CONTIGUOUS!=layout->type && H5FD_MPIO_COLLECTIVE==xfer_mode) - HRETURN_ERROR (H5E_DATASET, H5E_WRITEERROR, FAIL, "collective access on non-contiguous datasets not supported yet"); + HGOTO_ERROR (H5E_DATASET, H5E_WRITEERROR, FAIL, "collective access on non-contiguous datasets not supported yet"); #endif #ifdef QAK @@ -496,6 +485,10 @@ H5F_arr_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, } #endif /* QAK */ + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_EXT_FILE_LIST_NAME, &efl) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get EFL value"); + switch (layout->type) { case H5D_CONTIGUOUS: ndims = layout->ndims; @@ -503,21 +496,11 @@ H5F_arr_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, * Offsets must not be negative for this type of storage. */ for (u=0; u<ndims; u++) { - if (mem_offset[u]<0 || file_offset[u]<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "negative offsets are not valid"); - } + if (mem_offset[u]<0 || file_offset[u]<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "negative offsets are not valid"); } /* - * Filters cannot be used for contiguous data - */ - if (pline && pline->nfilters>0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "filters are not allowed for contiguous data"); - } - - /* * Calculate the strides needed to walk through the array on disk. * Optimize the strides to result in the fewest number of I/O * requests. @@ -538,7 +521,7 @@ H5F_arr_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, H5V_vector_cpy(ndims, idx, hslab_size); nelmts = H5V_vector_reduce_product(ndims, hslab_size); - if (efl && efl->nused>0) { + if (efl.nused>0) { addr = 0; } else { addr = layout->addr; @@ -575,29 +558,22 @@ H5F_arr_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, #ifdef AKC printf("nelmts=%lu, min=%lu, max=%lu\n", temp, min, max); #endif - if (max != min) { - HRETURN_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, - "collective access with unequal number of " - "blocks not supported yet"); - } + if (max != min) + HGOTO_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, "collective access with unequal number of blocks not supported yet"); } #endif for (z=0; z<nelmts; z++) { /* Write to file */ - if (efl && efl->nused>0) { + if (efl.nused>0) { H5_CHECK_OVERFLOW(elmt_size,hsize_t,size_t); - if (H5O_efl_write(f, efl, addr, (size_t)elmt_size, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "external data write failed"); - } + if (H5O_efl_write(f, &efl, addr, (size_t)elmt_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "external data write failed"); } else { H5_CHECK_OVERFLOW(elmt_size,hsize_t,size_t); - if (H5F_contig_write(f, max_data, H5FD_MEM_DRAW, addr, (size_t)elmt_size, dxpl_id, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "block write failed"); - } + if (H5F_contig_write(f, max_data, H5FD_MEM_DRAW, addr, (size_t)elmt_size, dxpl_id, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "block write failed"); } /* end else */ /* Decrement indices and advance pointers */ @@ -621,19 +597,20 @@ H5F_arr_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* * This method is unable to access external raw data files */ - if (efl && efl->nused>0) - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "chunking and external files are mutually exclusive"); + if (efl.nused>0) + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "chunking and external files are mutually exclusive"); /* Write the read to the chunks */ - if (H5F_istore_write(f, dxpl_id, layout, pline, fill, mem_size, + if (H5F_istore_write(f, dxpl_id, layout, dc_plist, mem_size, mem_offset, file_offset, hslab_size, buf)<0) - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); break; default: assert("not implemented yet" && 0); - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); } - FUNC_LEAVE (SUCCEED); +done: + FUNC_LEAVE (ret_value); } diff --git a/src/H5Fistore.c b/src/H5Fistore.c index 54b2fd2..1c2b137 100644 --- a/src/H5Fistore.c +++ b/src/H5Fistore.c @@ -1774,7 +1774,7 @@ H5F_istore_unlock(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, */ herr_t H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, - const H5O_pline_t *pline, const H5O_fill_t *fill, + H5P_genplist_t *dc_plist, const hsize_t size_m[], const hssize_t offset_m[], const hssize_t offset_f[], const hsize_t size[], void *buf) { @@ -1792,6 +1792,9 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, unsigned idx_hint=0; /*cache index hint */ hsize_t chunk_size; /* Bytes in chunk */ haddr_t chunk_addr; /* Chunk address on disk */ + H5O_pline_t pline; /* I/O pipeline information */ + H5O_fill_t fill; /* Fill value information */ + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER(H5F_istore_read, FAIL); @@ -1806,6 +1809,12 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, assert(size); assert(buf); + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get fill value"); + if(H5P_get(dc_plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get data pipeline"); + /* Compute chunk size */ for (u=0, chunk_size=1; u<layout->ndims; u++) chunk_size *= layout->dim[u]; @@ -1832,7 +1841,8 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, } /* Loop over all chunks */ - while (1) { + carry=0; + while (carry==0) { for (u=0, naccessed=1; u<layout->ndims; u++) { /* The location and size of the chunk being accessed */ assert(layout->dim[u] < HSSIZET_MAX); @@ -1860,7 +1870,7 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, * for the chunk has been defined, then don't load the chunk into the * cache, just read the data from it directly. */ - if ((chunk_size>f->shared->rdcc_nbytes && pline->nfilters==0 && + if ((chunk_size>f->shared->rdcc_nbytes && pline.nfilters==0 && chunk_addr!=HADDR_UNDEF) #ifdef H5_HAVE_PARALLEL @@ -1876,8 +1886,8 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, #ifdef H5_HAVE_PARALLEL /* Additional sanity checks when operating in parallel */ - if (chunk_addr==HADDR_UNDEF || pline->nfilters>0) - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to locate raw data chunk"); + if (chunk_addr==HADDR_UNDEF || pline.nfilters>0) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to locate raw data chunk"); #endif /* H5_HAVE_PARALLEL */ /* @@ -1890,29 +1900,24 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, for (u=l.ndims; u-- > 0; /*void*/) l.dim[u] = layout->dim[u]; l.addr = chunk_addr; - if (H5F_arr_read(f, H5P_DATASET_XFER_DEFAULT, &l, pline, fill, NULL/*no efl*/, + if (H5F_arr_read(f, H5P_DATASET_XFER_DEFAULT, &l, dc_plist, sub_size, size_m, sub_offset_m, offset_wrt_chunk, buf)<0) - HRETURN_ERROR (H5E_IO, H5E_READERROR, FAIL, "unable to read raw data from file"); + HGOTO_ERROR (H5E_IO, H5E_READERROR, FAIL, "unable to read raw data from file"); } /* end if */ else { /* * Lock the chunk, transfer data to the application, then unlock * the chunk. */ - if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, pline, fill, - chunk_offset, FALSE, &idx_hint))) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "unable to read raw data chunk"); - } + if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, &pline, &fill, + chunk_offset, FALSE, &idx_hint))) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "unable to read raw data chunk"); H5V_hyper_copy(layout->ndims, sub_size, size_m, sub_offset_m, (void*)buf, layout->dim, offset_wrt_chunk, chunk); H5_CHECK_OVERFLOW(naccessed,hsize_t,size_t); - if (H5F_istore_unlock(f, dxpl_id, layout, pline, FALSE, - chunk_offset, &idx_hint, chunk, - (size_t)naccessed)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "unable to unlock raw data chunk"); - } + if (H5F_istore_unlock(f, dxpl_id, layout, &pline, FALSE, + chunk_offset, &idx_hint, chunk, (size_t)naccessed)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "unable to unlock raw data chunk"); } /* end else */ /* Increment indices */ @@ -1922,10 +1927,10 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, else carry = 0; } - if (carry) - break; } - FUNC_LEAVE(SUCCEED); + +done: + FUNC_LEAVE(ret_value); } @@ -1951,7 +1956,7 @@ H5F_istore_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, */ herr_t H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, - const H5O_pline_t *pline, const H5O_fill_t *fill, + H5P_genplist_t *dc_plist, const hsize_t size_m[], const hssize_t offset_m[], const hssize_t offset_f[], const hsize_t size[], const void *buf) @@ -1969,6 +1974,9 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, unsigned idx_hint=0; hsize_t chunk_size, naccessed; haddr_t chunk_addr; /* Chunk address on disk */ + H5O_pline_t pline; /* I/O pipeline information */ + H5O_fill_t fill; /* Fill value information */ + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER(H5F_istore_write, FAIL); @@ -1983,6 +1991,12 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, assert(size); assert(buf); + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get fill value"); + if(H5P_get(dc_plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get data pipeline"); + /* Compute chunk size */ for (u=0, chunk_size=1; u<layout->ndims; u++) chunk_size *= layout->dim[u]; @@ -2010,7 +2024,8 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, /* Loop over all chunks */ - while (1) { + carry=0; + while (carry==0) { for (u=0, naccessed=1; u<layout->ndims; u++) { /* The location and size of the chunk being accessed */ assert(layout->dim[u] < HSSIZET_MAX); @@ -2038,7 +2053,7 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, * for the chunk has been defined, then don't load the chunk into the * cache, just write the data to it directly. */ - if ((chunk_size>f->shared->rdcc_nbytes && pline->nfilters==0 && + if ((chunk_size>f->shared->rdcc_nbytes && pline.nfilters==0 && chunk_addr!=HADDR_UNDEF) #ifdef H5_HAVE_PARALLEL @@ -2054,8 +2069,8 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, #ifdef H5_HAVE_PARALLEL /* Additional sanity check when operating in parallel */ - if (chunk_addr==HADDR_UNDEF || pline->nfilters>0) - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to locate raw data chunk"); + if (chunk_addr==HADDR_UNDEF || pline.nfilters>0) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to locate raw data chunk"); #endif /* H5_HAVE_PARALLEL */ /* @@ -2068,24 +2083,24 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, for (u=l.ndims; u-- > 0; /*void*/) l.dim[u] = layout->dim[u]; l.addr = chunk_addr; - if (H5F_arr_write(f, H5P_DATASET_XFER_DEFAULT, &l, pline, fill, NULL/*no efl*/, + if (H5F_arr_write(f, H5P_DATASET_XFER_DEFAULT, &l, dc_plist, sub_size, size_m, sub_offset_m, offset_wrt_chunk, buf)<0) - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to write raw data to file"); + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to write raw data to file"); } /* end if */ else { /* * Lock the chunk, copy from application to chunk, then unlock the * chunk. */ - if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, pline, fill, + if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, &pline, &fill, chunk_offset, (hbool_t)(naccessed==chunk_size), &idx_hint))) - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to read raw data chunk"); + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to read raw data chunk"); H5V_hyper_copy(layout->ndims, sub_size, layout->dim, offset_wrt_chunk, chunk, size_m, sub_offset_m, buf); H5_CHECK_OVERFLOW(naccessed,hsize_t,size_t); - if (H5F_istore_unlock(f, dxpl_id, layout, pline, TRUE, + if (H5F_istore_unlock(f, dxpl_id, layout, &pline, TRUE, chunk_offset, &idx_hint, chunk, (size_t)naccessed)<0) - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "uanble to unlock raw data chunk"); + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "uanble to unlock raw data chunk"); } /* end else */ /* Increment indices */ @@ -2095,11 +2110,10 @@ H5F_istore_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, else carry = 0; } - if (carry) - break; - } + } /* end while */ - FUNC_LEAVE(SUCCEED); +done: + FUNC_LEAVE(ret_value); } @@ -2403,33 +2417,34 @@ done: */ herr_t H5F_istore_allocate(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, - const hsize_t *space_dim, const H5O_pline_t *pline, - const H5O_fill_t *fill) + const hsize_t *space_dim, H5P_genplist_t *dc_plist) { int i, carry; - unsigned u; - hssize_t chunk_offset[H5O_LAYOUT_NDIMS]; - uint8_t *chunk=NULL; - unsigned idx_hint=0; - hsize_t chunk_size; -#ifdef AKC - H5F_istore_ud1_t udata; -#endif + unsigned u; + hssize_t chunk_offset[H5O_LAYOUT_NDIMS]; + uint8_t *chunk=NULL; + unsigned idx_hint=0; + hsize_t chunk_size; + H5O_pline_t pline; /* I/O pipeline information */ + H5O_fill_t fill; /* Fill value information */ + herr_t ret_value=SUCCEED; /* Return value */ FUNC_ENTER(H5F_istore_allocate, FAIL); -#ifdef AKC - printf("Enter %s:\n", FUNC); -#endif /* Check args */ assert(f); assert(space_dim); - assert(pline); assert(layout && H5D_CHUNKED==layout->type); assert(layout->ndims>0 && layout->ndims<=H5O_LAYOUT_NDIMS); assert(H5F_addr_defined(layout->addr)); + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get fill value"); + if(H5P_get(dc_plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get data pipeline"); + /* * Setup indice to go through all chunks. (Future improvement * should allocate only chunks that have no file space assigned yet. @@ -2437,65 +2452,37 @@ H5F_istore_allocate(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, for (u=0, chunk_size=1; u<layout->ndims; u++) { chunk_offset[u]=0; chunk_size *= layout->dim[u]; - } + } /* end for */ /* Loop over all chunks */ - while (1) { - -#ifdef AKC - printf("Checking allocation for chunk( "); - for (u=0; u<layout->ndims; u++){ - printf("%ld ", chunk_offset[u]); - } - printf(")\n"); -#endif -#ifdef NO - if (H5F_istore_get_addr(f, layout, chunk_offset, &udata)<0) { -#endif - /* No file space assigned yet. Allocate it. */ - /* The following needs improvement like calling the */ - /* allocation directly rather than indirectly using the */ - /* allocation effect in the unlock process. */ + carry=0; + while (carry==0) { + /* No file space assigned yet. Allocate it. */ + /* The following needs improvement like calling the */ + /* allocation directly rather than indirectly using the */ + /* allocation effect in the unlock process. */ -#ifdef AKC - printf("need allocation\n"); -#endif - /* - * Lock the chunk, copy from application to chunk, then unlock the - * chunk. - */ + /* + * Lock the chunk, copy from application to chunk, then unlock the + * chunk. + */ #ifdef H5_HAVE_PARALLEL - /* rky 981207 Serialize access to this critical region. */ - if (SUCCEED!= H5FD_mpio_wait_for_left_neighbor(f->shared->lf)) { - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, - "unable to lock the data chunk"); - } + /* rky 981207 Serialize access to this critical region. */ + if (SUCCEED!= H5FD_mpio_wait_for_left_neighbor(f->shared->lf)) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to lock the data chunk"); #endif - if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, pline, - fill, chunk_offset, FALSE, &idx_hint))) { - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, - "unable to read raw data chunk"); - } - H5_CHECK_OVERFLOW(chunk_size,hsize_t,size_t); - if (H5F_istore_unlock(f, dxpl_id, layout, pline, TRUE, - chunk_offset, &idx_hint, chunk, (size_t)chunk_size)<0) { - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, - "uanble to unlock raw data chunk"); - } + if (NULL==(chunk=H5F_istore_lock(f, dxpl_id, layout, &pline, + &fill, chunk_offset, FALSE, &idx_hint))) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to read raw data chunk"); + + H5_CHECK_OVERFLOW(chunk_size,hsize_t,size_t); + if (H5F_istore_unlock(f, dxpl_id, layout, &pline, TRUE, + chunk_offset, &idx_hint, chunk, (size_t)chunk_size)<0) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "uanble to unlock raw data chunk"); #ifdef H5_HAVE_PARALLEL - if (SUCCEED!= H5FD_mpio_signal_right_neighbor(f->shared->lf)) { - HRETURN_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, - "unable to unlock the data chunk"); - } -#endif -#ifdef NO - } else { -#ifdef AKC - printf("NO need for allocation\n"); - HDfprintf(stdout, "udata.addr=%a\n", udata.addr); -#endif - } + if (SUCCEED!= H5FD_mpio_signal_right_neighbor(f->shared->lf)) + HGOTO_ERROR (H5E_IO, H5E_WRITEERROR, FAIL, "unable to unlock the data chunk"); #endif /* Increment indices */ @@ -2506,10 +2493,8 @@ H5F_istore_allocate(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, } else { carry = 0; } - } - if (carry) - break; - } + } /* end for */ + } /* end while */ #ifdef H5_HAVE_PARALLEL /* @@ -2522,12 +2507,12 @@ H5F_istore_allocate(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, * removed, when H5D_init_storage is changed to call H5MF_alloc directly * to allocate space, instead of calling H5F_istore_unlock. */ - if (MPI_Barrier(H5FD_mpio_communicator(f->shared->lf))) { - HRETURN_ERROR(H5E_INTERNAL, H5E_MPI, FAIL, "MPI_Barrier failed"); - } + if (MPI_Barrier(H5FD_mpio_communicator(f->shared->lf))) + HGOTO_ERROR(H5E_INTERNAL, H5E_MPI, FAIL, "MPI_Barrier failed"); #endif - FUNC_LEAVE(SUCCEED); +done: + FUNC_LEAVE(ret_value); } @@ -2632,7 +2617,7 @@ H5F_istore_allocate(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, *------------------------------------------------------------------------- */ herr_t -H5F_istore_prune_by_extent(H5F_t *f, H5O_layout_t *layout, H5S_t * space) +H5F_istore_prune_by_extent(H5F_t *f, const H5O_layout_t *layout, const H5S_t * space) { H5F_rdcc_t *rdcc = &(f->shared->rdcc); /*raw data chunk cache */ H5F_rdcc_ent_t *ent = NULL, *next = NULL; /*cache entry */ @@ -2652,16 +2637,13 @@ H5F_istore_prune_by_extent(H5F_t *f, H5O_layout_t *layout, H5S_t * space) /* Go get the rank & dimensions */ if(H5S_get_simple_extent_dims(space, curr_dims, NULL) < 0) - HRETURN_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, - "can't get dataset dimensions"); - + HRETURN_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get dataset dimensions"); /*------------------------------------------------------------------------- * Figure out what chunks are no longer in use for the specified extent * and release them from the linked list raw data cache *------------------------------------------------------------------------- */ - for(ent = rdcc->head; ent; ent = next) { next = ent->next; @@ -2830,8 +2812,8 @@ H5F_istore_remove(H5F_t *f, haddr_t addr, void *_lt_key /*in,out */ , *------------------------------------------------------------------------- */ herr_t -H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, - H5O_pline_t * pline, H5O_fill_t * fill, H5S_t * space) +H5F_istore_initialize_by_extent(H5F_t *f, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, const H5S_t * space) { hid_t dxpl_id; /*dataset transfer property list */ uint8_t *chunk = NULL; /*the file chunk */ @@ -2853,6 +2835,9 @@ H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, int i, carry; /*counters */ unsigned u; int found = 0; /*initialize this entry */ + H5O_pline_t pline; /* I/O pipeline information */ + H5O_fill_t fill; /* Fill value information */ + herr_t ret_value=SUCCEED; /* Return value */ FUNC_ENTER(H5F_istore_initialize_by_extent, FAIL); @@ -2862,20 +2847,24 @@ H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, assert(layout->ndims > 0 && layout->ndims <= H5O_LAYOUT_NDIMS); assert(H5F_addr_defined(layout->addr)); assert(space); - assert(pline); - assert(fill); + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_FILL_VALUE_NAME, &fill) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get fill value"); + if(H5P_get(dc_plist, H5D_CRT_DATA_PIPELINE_NAME, &pline) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get data pipeline"); + + /* Reset start & count arrays */ HDmemset(start, 0, sizeof(start)); HDmemset(count, 0, sizeof(count)); /* Go get the rank & dimensions */ if((rank = H5S_get_simple_extent_dims(space, curr_dims, NULL)) < 0) - HRETURN_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, - "can't get dataset dimensions"); + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get dataset dimensions"); - for(i = 0; i < rank; i++) { + /* Copy current dimensions */ + for(i = 0; i < rank; i++) size[i] = curr_dims[i]; - } size[i] = layout->dim[i]; elm_size = size[i]; @@ -2883,15 +2872,10 @@ H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, dxpl_id = H5P_DATASET_XFER_DEFAULT; /* Create a data space for a chunk & set the extent */ - if(NULL == (space_chunk = H5S_create(H5S_SIMPLE))) { - HRETURN_ERROR(H5E_DATASPACE, H5E_CANTCREATE, FAIL, - "can't create simple dataspace"); - } - if(H5S_set_extent_simple(space_chunk, (unsigned)rank, layout->dim, - NULL) < 0) { - HRETURN_ERROR(H5E_DATASPACE, H5E_CANTINIT, FAIL, - "can't set dimensions"); - } + if(NULL == (space_chunk = H5S_create(H5S_SIMPLE))) + HGOTO_ERROR(H5E_DATASPACE, H5E_CANTCREATE, FAIL, "can't create simple dataspace"); + if(H5S_set_extent_simple(space_chunk, (unsigned)rank, layout->dim, NULL) < 0) + HGOTO_ERROR(H5E_DATASPACE, H5E_CANTINIT, FAIL, "can't set dimensions"); /* * Set up multi-dimensional counters (idx_min, idx_max, and idx_cur) and @@ -2902,87 +2886,68 @@ H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, idx_min[u] = 0; idx_max[u] = (size[u] - 1) / layout->dim[u] + 1; idx_cur[u] = idx_min[u]; - } + } /* end for */ /* Loop over all chunks */ - while(1) { + carry=0; + while(carry==0) { for(u = 0, naccessed = 1; u < layout->ndims; u++) { /* The location and size of the chunk being accessed */ chunk_offset[u] = idx_cur[u] * (hssize_t)(layout->dim[u]); - sub_size[u] = - MIN((idx_cur[u] + 1) * layout->dim[u], + sub_size[u] = MIN((idx_cur[u] + 1) * layout->dim[u], size[u]) - chunk_offset[u]; naccessed *= sub_size[u]; - } + } /* end for */ /* * Figure out what chunks have to be initialized. These are the chunks where the database * extent boundary is within the chunk */ - for(u = 0, found = 0; u < layout->ndims - 1; u++) { end_chunk = chunk_offset[u] + layout->dim[u]; if(end_chunk > size[u]) { found = 1; break; } - } + } /* end for */ if(found) { - if(NULL == (chunk = - H5F_istore_lock(f, dxpl_id, layout, pline, fill, - chunk_offset, FALSE, &idx_hint))) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "unable to read raw data chunk"); - } + if(NULL == (chunk = H5F_istore_lock(f, dxpl_id, layout, &pline, &fill, + chunk_offset, FALSE, &idx_hint))) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "unable to read raw data chunk"); - if(H5S_select_all(space_chunk) < 0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "unable to select space"); - } + if(H5S_select_all(space_chunk) < 0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "unable to select space"); - for(i = 0; i < rank; i++) { - count[i] = - MIN((idx_cur[i] + 1) * layout->dim[i], - size[i] - chunk_offset[i]); - } + for(i = 0; i < rank; i++) + count[i] = MIN((idx_cur[i] + 1) * layout->dim[i], size[i] - chunk_offset[i]); #if defined (H5F_ISTORE_DEBUG) HDfputs("cache:initialize:offset:[", stdout); - for(u = 0; u < layout->ndims - 1; u++) { + for(u = 0; u < layout->ndims - 1; u++) HDfprintf(stdout, "%s%Hd", u ? ", " : "", chunk_offset[u]); - } HDfputs("]", stdout); HDfputs(":count:[", stdout); - for(u = 0; u < layout->ndims - 1; u++) { + for(u = 0; u < layout->ndims - 1; u++) HDfprintf(stdout, "%s%Hd", u ? ", " : "", count[u]); - } HDfputs("]\n", stdout); #endif if(H5S_select_hyperslab(space_chunk, H5S_SELECT_NOTB, start, NULL, - count, NULL) < 0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "unable to select hyperslab"); - } + count, NULL) < 0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "unable to select hyperslab"); /* Fill the selection in the memory buffer */ - if(H5S_select_fill(fill->buf, fill->size, space_chunk, chunk) < 0) { - HRETURN_ERROR(H5E_DATASET, H5E_CANTENCODE, FAIL, - "filling selection failed"); - } - - if(H5F_istore_unlock(f, dxpl_id, layout, pline, TRUE, - chunk_offset, &idx_hint, chunk, - (size_t)naccessed) < 0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "unable to unlock raw data chunk"); - } + if(H5S_select_fill(fill.buf, fill.size, space_chunk, chunk) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTENCODE, FAIL, "filling selection failed"); - } /*found */ + if(H5F_istore_unlock(f, dxpl_id, layout, &pline, TRUE, + chunk_offset, &idx_hint, chunk, (size_t)naccessed) < 0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "unable to unlock raw data chunk"); + } /*found */ /* Increment indices */ for(i = layout->ndims - 1, carry = 1; i >= 0 && carry; --i) { @@ -2990,14 +2955,12 @@ H5F_istore_initialize_by_extent(H5F_t *f, H5O_layout_t *layout, idx_cur[i] = idx_min[i]; else carry = 0; - } - if(carry) - break; - - } + } /* end for */ + } /* end while */ +done: if(space_chunk) H5S_close(space_chunk); - FUNC_LEAVE(SUCCEED); + FUNC_LEAVE(ret_value); } diff --git a/src/H5Fpkg.h b/src/H5Fpkg.h index 5c81dfc..bb36ba6 100644 --- a/src/H5Fpkg.h +++ b/src/H5Fpkg.h @@ -183,24 +183,21 @@ __DLL__ herr_t H5F_istore_stats (H5F_t *f, hbool_t headers); __DLL__ herr_t H5F_istore_create(H5F_t *f, struct H5O_layout_t *layout/*in,out*/); __DLL__ herr_t H5F_istore_read(H5F_t *f, hid_t dxpl_id, - const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const hsize_t size_m[], const hssize_t offset_m[], - const hssize_t offset_f[], const hsize_t size[], - void *buf/*out*/); + const struct H5O_layout_t *layout, + struct H5P_genplist_t *dc_plist, + const hsize_t size_m[], const hssize_t offset_m[], + const hssize_t offset_f[], const hsize_t size[], + void *buf/*out*/); __DLL__ herr_t H5F_istore_write(H5F_t *f, hid_t dxpl_id, - const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, + const struct H5O_layout_t *layout, + struct H5P_genplist_t *dc_plist, const hsize_t size_m[], const hssize_t offset_m[], - const hssize_t offset[], const hsize_t size[], - const void *buf); + const hssize_t offset[], const hsize_t size[], + const void *buf); __DLL__ herr_t H5F_istore_allocate (H5F_t *f, hid_t dxpl_id, - const struct H5O_layout_t *layout, - const hsize_t *space_dim, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill); + const struct H5O_layout_t *layout, + const hsize_t *space_dim, + struct H5P_genplist_t *dc_plist); /* Functions that operate on contiguous storage wrt boot block */ __DLL__ herr_t H5F_contig_read(H5F_t *f, hsize_t max_data, H5FD_mem_t type, haddr_t addr, diff --git a/src/H5Fprivate.h b/src/H5Fprivate.h index 898da84..42af604 100644 --- a/src/H5Fprivate.h +++ b/src/H5Fprivate.h @@ -321,11 +321,12 @@ __DLL__ size_t H5F_sizeof_size(const H5F_t *f); #define H5F_MNT_SYM_LOCAL_DEF FALSE /* Forward declarations for prototypes arguments */ +struct H5G_entry_t; struct H5O_layout_t; struct H5O_efl_t; struct H5O_pline_t; struct H5O_fill_t; -struct H5G_entry_t; +struct H5P_genplist_t; struct H5S_t; /* Private functions, not part of the publicly documented API */ @@ -338,23 +339,19 @@ __DLL__ herr_t H5F_get_fileno(const H5F_t *f, unsigned long *filenum); __DLL__ herr_t H5F_arr_create(H5F_t *f, struct H5O_layout_t *layout /*in,out*/); __DLL__ herr_t H5F_arr_read (H5F_t *f, hid_t dxpl_id, - const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, - const hsize_t _hslab_size[], - const hsize_t mem_size[], - const hssize_t mem_offset[], - const hssize_t file_offset[], void *_buf/*out*/); + const struct H5O_layout_t *layout, + struct H5P_genplist_t *dc_plist, + const hsize_t _hslab_size[], + const hsize_t mem_size[], + const hssize_t mem_offset[], + const hssize_t file_offset[], void *_buf/*out*/); __DLL__ herr_t H5F_arr_write (H5F_t *f, hid_t dxpl_id, - const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, - const hsize_t _hslab_size[], - const hsize_t mem_size[], - const hssize_t mem_offset[], - const hssize_t file_offset[], const void *_buf); + const struct H5O_layout_t *layout, + struct H5P_genplist_t *dc_plist, + const hsize_t _hslab_size[], + const hsize_t mem_size[], + const hssize_t mem_offset[], + const hssize_t file_offset[], const void *_buf); /* Functions that operate on blocks of bytes wrt boot block */ __DLL__ herr_t H5F_block_read(H5F_t *f, H5FD_mem_t type, haddr_t addr, @@ -364,25 +361,25 @@ __DLL__ herr_t H5F_block_write(H5F_t *f, H5FD_mem_t type, haddr_t addr, /* Functions that operate on byte sequences */ __DLL__ herr_t H5F_seq_read(H5F_t *f, hid_t dxpl_id, - const struct H5O_layout_t *layout, const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, const struct H5O_efl_t *efl, + const struct H5O_layout_t *layout, + struct H5P_genplist_t *dc_plist, const struct H5S_t *file_space, size_t elmt_size, size_t seq_len, hsize_t file_offset, void *_buf/*out*/); __DLL__ herr_t H5F_seq_write (H5F_t *f, hid_t dxpl_id, - const struct H5O_layout_t *layout, const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, const struct H5O_efl_t *efl, + const struct H5O_layout_t *layout, + struct H5P_genplist_t *dc_plist, const struct H5S_t *file_space, size_t elmt_size, size_t seq_len, hsize_t file_offset, const void *_buf); /* Functions that operate on vectors of byte sequences */ __DLL__ herr_t H5F_seq_readv(H5F_t *f, hid_t dxpl_id, - const struct H5O_layout_t *layout, const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, const struct H5O_efl_t *efl, + const struct H5O_layout_t *layout, + struct H5P_genplist_t *dc_plist, const struct H5S_t *file_space, size_t elmt_size, size_t nseq, size_t seq_len[], hsize_t file_offset[], void *_buf/*out*/); __DLL__ herr_t H5F_seq_writev(H5F_t *f, hid_t dxpl_id, - const struct H5O_layout_t *layout, const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, const struct H5O_efl_t *efl, + const struct H5O_layout_t *layout, + struct H5P_genplist_t *dc_plist, const struct H5S_t *file_space, size_t elmt_size, size_t nseq, size_t seq_len[], hsize_t file_offset[], const void *_buf); @@ -390,16 +387,12 @@ __DLL__ herr_t H5F_seq_writev(H5F_t *f, hid_t dxpl_id, /* Functions that operate on indexed storage */ __DLL__ hsize_t H5F_istore_allocated(H5F_t *f, unsigned ndims, haddr_t addr); __DLL__ herr_t H5F_istore_dump_btree(H5F_t *f, FILE *stream, unsigned ndims, - haddr_t addr); - -__DLL__ herr_t H5F_istore_prune_by_extent( H5F_t *f, - struct H5O_layout_t *layout, - struct H5S_t *space ); + haddr_t addr); +__DLL__ herr_t H5F_istore_prune_by_extent( H5F_t *f, + const struct H5O_layout_t *layout, const struct H5S_t *space); __DLL__ herr_t H5F_istore_initialize_by_extent( H5F_t *f, - struct H5O_layout_t *layout, - struct H5O_pline_t *pline, - struct H5O_fill_t *fill, - struct H5S_t *space ); + const struct H5O_layout_t *layout, struct H5P_genplist_t *dc_plist, + const struct H5S_t *space ); /* Functions for allocation/releasing chunks */ __DLL__ void * H5F_istore_chunk_alloc(size_t chunk_size); diff --git a/src/H5Fseq.c b/src/H5Fseq.c index 20c71a7..2714174 100644 --- a/src/H5Fseq.c +++ b/src/H5Fseq.c @@ -57,10 +57,10 @@ static int interface_initialize_g = 0; *------------------------------------------------------------------------- */ herr_t -H5F_seq_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, const H5O_fill_t *fill, - const struct H5O_efl_t *efl, const H5S_t *file_space, size_t elmt_size, - size_t seq_len, hsize_t file_offset, void *buf/*out*/) +H5F_seq_read(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, + const H5S_t *file_space, size_t elmt_size, + size_t seq_len, hsize_t file_offset, void *buf/*out*/) { FUNC_ENTER(H5F_seq_read, FAIL); @@ -69,7 +69,7 @@ H5F_seq_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, assert(layout); assert(buf); - if (H5F_seq_readv(f, dxpl_id, layout, pline, fill, efl, file_space, elmt_size, 1, &seq_len, &file_offset, buf)<0) + if (H5F_seq_readv(f, dxpl_id, layout, dc_plist, file_space, elmt_size, 1, &seq_len, &file_offset, buf)<0) HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "vector read failed"); FUNC_LEAVE(SUCCEED); @@ -98,10 +98,10 @@ H5F_seq_read(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, *------------------------------------------------------------------------- */ herr_t -H5F_seq_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, const H5O_fill_t *fill, - const struct H5O_efl_t *efl, const H5S_t *file_space, size_t elmt_size, - size_t seq_len, hsize_t file_offset, const void *buf) +H5F_seq_write(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, + const H5S_t *file_space, size_t elmt_size, + size_t seq_len, hsize_t file_offset, const void *buf) { FUNC_ENTER(H5F_seq_write, FAIL); @@ -110,7 +110,7 @@ H5F_seq_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, assert(layout); assert(buf); - if (H5F_seq_writev(f, dxpl_id, layout, pline, fill, efl, file_space, elmt_size, 1, &seq_len, &file_offset, buf)<0) + if (H5F_seq_writev(f, dxpl_id, layout, dc_plist, file_space, elmt_size, 1, &seq_len, &file_offset, buf)<0) HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "vector write failed"); FUNC_LEAVE(SUCCEED); @@ -141,11 +141,11 @@ H5F_seq_write(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, *------------------------------------------------------------------------- */ herr_t -H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, const H5O_fill_t *fill, - const struct H5O_efl_t *efl, const H5S_t *file_space, size_t elmt_size, - size_t nseq, size_t seq_len_arr[], hsize_t file_offset_arr[], - void *_buf/*out*/) +H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, + const H5S_t *file_space, size_t elmt_size, + size_t nseq, size_t seq_len_arr[], hsize_t file_offset_arr[], + void *_buf/*out*/) { unsigned char *real_buf=(unsigned char *)_buf; /* Local pointer to buffer to fill */ unsigned char *buf; /* Local pointer to buffer to fill */ @@ -163,10 +163,12 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, unsigned u; /*counters */ size_t v; /*counters */ int i,j; /*counters */ + struct H5O_efl_t efl; /* External File List info */ #ifdef H5_HAVE_PARALLEL H5FD_mpio_xfer_t xfer_mode=H5FD_MPIO_INDEPENDENT; H5P_genplist_t *plist=NULL; /* Property list */ #endif + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER(H5F_seq_readv, FAIL); @@ -186,17 +188,17 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Get the plist structure */ if(NULL == (plist = H5I_object(dxpl_id))) - HRETURN_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); + HGOTO_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); /* Get the driver ID */ if(H5P_get(plist, H5D_XFER_VFL_ID_NAME, &driver_id)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); /* Check if we are using the MPIO driver */ if(H5FD_MPIO==driver_id) { /* Get the driver information */ if(H5P_get(plist, H5D_XFER_VFL_INFO_NAME, &dx)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); /* Check if we are not using independent I/O */ if(H5FD_MPIO_INDEPENDENT!=dx->xfer_mode) @@ -206,54 +208,49 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Collective MPIO access is unsupported for non-contiguous datasets */ if (H5D_CONTIGUOUS!=layout->type && H5FD_MPIO_COLLECTIVE==xfer_mode) - HRETURN_ERROR (H5E_DATASET, H5E_READERROR, FAIL, "collective access on non-contiguous datasets not supported yet"); + HGOTO_ERROR (H5E_DATASET, H5E_READERROR, FAIL, "collective access on non-contiguous datasets not supported yet"); #endif + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_EXT_FILE_LIST_NAME, &efl) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get EFL value"); + switch (layout->type) { case H5D_CONTIGUOUS: - /* Filters cannot be used for contiguous data. */ - if (pline && pline->nfilters>0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "filters are not allowed for contiguous data"); - } - - /* Read directly from file if the dataset is in an external file */ - if (efl && efl->nused>0) { + if (efl.nused>0) { /* Iterate through the sequence vectors */ for(v=0; v<nseq; v++) { #ifdef H5_HAVE_PARALLEL - if (H5FD_MPIO_COLLECTIVE==xfer_mode) { - /* - * Currently supports same number of collective access. Need to - * be changed LATER to combine all reads into one collective MPIO - * call. - */ - unsigned long max, min, temp; - - temp = seq_len_arr[v]; - assert(temp==seq_len_arr[v]); /* verify no overflow */ - MPI_Allreduce(&temp, &max, 1, MPI_UNSIGNED_LONG, MPI_MAX, - H5FD_mpio_communicator(f->shared->lf)); - MPI_Allreduce(&temp, &min, 1, MPI_UNSIGNED_LONG, MPI_MIN, - H5FD_mpio_communicator(f->shared->lf)); + if (H5FD_MPIO_COLLECTIVE==xfer_mode) { + /* + * Currently supports same number of collective access. Need to + * be changed LATER to combine all reads into one collective MPIO + * call. + */ + unsigned long max, min, temp; + + temp = seq_len_arr[v]; + assert(temp==seq_len_arr[v]); /* verify no overflow */ + MPI_Allreduce(&temp, &max, 1, MPI_UNSIGNED_LONG, MPI_MAX, + H5FD_mpio_communicator(f->shared->lf)); + MPI_Allreduce(&temp, &min, 1, MPI_UNSIGNED_LONG, MPI_MIN, + H5FD_mpio_communicator(f->shared->lf)); #ifdef AKC - printf("seq_len=%lu, min=%lu, max=%lu\n", temp, min, max); + printf("seq_len=%lu, min=%lu, max=%lu\n", temp, min, max); #endif - if (max != min) - HRETURN_ERROR(H5E_DATASET, H5E_READERROR, FAIL, - "collective access with unequal number of blocks not supported yet"); - } + if (max != min) + HGOTO_ERROR(H5E_DATASET, H5E_READERROR, FAIL, + "collective access with unequal number of blocks not supported yet"); + } #endif /* Note: We can't use data sieve buffers for datasets in external files * because the 'addr' of all external files is set to 0 (above) and * all datasets in external files would alias to the same set of * file offsets, totally mixing up the data sieve buffer information. -QAK */ - if (H5O_efl_read(f, efl, file_offset_arr[v], seq_len_arr[v], real_buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "external data read failed"); - } + if (H5O_efl_read(f, &efl, file_offset_arr[v], seq_len_arr[v], real_buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "external data read failed"); /* Increment offset in buffer */ real_buf += seq_len_arr[v]; @@ -264,10 +261,8 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, max_data *= layout->dim[u]; /* Pass along the vector of sequences to read */ - if (H5F_contig_readv(f, max_data, H5FD_MEM_DRAW, layout->addr, nseq, seq_len_arr, file_offset_arr, dxpl_id, real_buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, - "block read failed"); - } + if (H5F_contig_readv(f, max_data, H5FD_MEM_DRAW, layout->addr, nseq, seq_len_arr, file_offset_arr, dxpl_id, real_buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "block read failed"); } /* end else */ break; @@ -275,13 +270,12 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* * This method is unable to access external raw data files */ - if (efl && efl->nused>0) { - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, - "chunking and external files are mutually exclusive"); - } + if (efl.nused>0) + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "chunking and external files are mutually exclusive"); + /* Compute the file offset coordinates and hyperslab size */ if((ndims=H5S_get_simple_extent_dims(file_space,dset_dims,NULL))<0) - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unable to retrieve dataspace dimensions"); + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unable to retrieve dataspace dimensions"); /* Build the array of cumulative hyperslab sizes */ /* (And set the memory offset to zero) */ @@ -340,11 +334,10 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Read in the partial hyperslab */ - if (H5F_istore_read(f, dxpl_id, layout, pline, fill, + if (H5F_istore_read(f, dxpl_id, layout, dc_plist, hslab_size, mem_offset, coords, hslab_size, - buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); - } + buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); /* Increment the buffer offset */ buf=(unsigned char *)buf+(partial_size*elmt_size); @@ -401,10 +394,9 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Read the full hyperslab in */ - if (H5F_istore_read(f, dxpl_id, layout, pline, fill, - hslab_size, mem_offset, coords, hslab_size, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); - } + if (H5F_istore_read(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); /* Increment the buffer offset */ buf=(unsigned char *)buf+(full_size*elmt_size); @@ -448,11 +440,9 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Read in the partial hyperslab */ - if (H5F_istore_read(f, dxpl_id, layout, pline, - fill, hslab_size, mem_offset, coords, - hslab_size, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); - } + if (H5F_istore_read(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); /* Increment the buffer offset */ buf=(unsigned char *)buf+(partial_size*elmt_size); @@ -484,11 +474,9 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Read in the partial hyperslab */ - if (H5F_istore_read(f, dxpl_id, layout, pline, fill, - hslab_size, mem_offset, coords, hslab_size, - buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); - } + if (H5F_istore_read(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "chunked read failed"); /* Double-check the amount read in */ assert(seq_len==partial_size); @@ -503,10 +491,11 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, default: assert("not implemented yet" && 0); - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); } /* end switch() */ - FUNC_LEAVE(SUCCEED); +done: + FUNC_LEAVE(ret_value); } /* H5F_seq_readv() */ @@ -534,11 +523,11 @@ H5F_seq_readv(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, *------------------------------------------------------------------------- */ herr_t -H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, const H5O_fill_t *fill, - const struct H5O_efl_t *efl, const H5S_t *file_space, size_t elmt_size, - size_t nseq, size_t seq_len_arr[], hsize_t file_offset_arr[], - const void *_buf) +H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, + const H5S_t *file_space, size_t elmt_size, + size_t nseq, size_t seq_len_arr[], hsize_t file_offset_arr[], + const void *_buf) { const unsigned char *real_buf=(const unsigned char *)_buf; /* Local pointer to buffer to fill */ const unsigned char *buf; /* Local pointer to buffer to fill */ @@ -556,10 +545,12 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, unsigned u; /*counters */ size_t v; /*counters */ int i,j; /*counters */ + struct H5O_efl_t efl; /* External File List info */ #ifdef H5_HAVE_PARALLEL H5FD_mpio_xfer_t xfer_mode=H5FD_MPIO_INDEPENDENT; H5P_genplist_t *plist=NULL; /* Property list */ #endif + herr_t ret_value = SUCCEED; /* Return value */ FUNC_ENTER(H5F_seq_writev, FAIL); @@ -579,17 +570,17 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Get the plist structure */ if(NULL == (plist = H5I_object(dxpl_id))) - HRETURN_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); + HGOTO_ERROR(H5E_ATOM, H5E_BADATOM, NULL, "can't find object for ID"); /* Get the driver ID */ if(H5P_get(plist, H5D_XFER_VFL_ID_NAME, &driver_id)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver ID"); /* Check if we are using the MPIO driver */ if(H5FD_MPIO==driver_id) { /* Get the driver information */ if(H5P_get(plist, H5D_XFER_VFL_INFO_NAME, &dx)<0) - HRETURN_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); + HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve VFL driver info"); /* Check if we are not using independent I/O */ if(H5FD_MPIO_INDEPENDENT!=dx->xfer_mode) @@ -599,56 +590,50 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* Collective MPIO access is unsupported for non-contiguous datasets */ if (H5D_CONTIGUOUS!=layout->type && H5FD_MPIO_COLLECTIVE==xfer_mode) { - HRETURN_ERROR (H5E_DATASET, H5E_WRITEERROR, FAIL, + HGOTO_ERROR (H5E_DATASET, H5E_WRITEERROR, FAIL, "collective access on non-contiguous datasets not supported yet"); } #endif + /* Get necessary properties from property list */ + if(H5P_get(dc_plist, H5D_CRT_EXT_FILE_LIST_NAME, &efl) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "can't get EFL value"); + switch (layout->type) { case H5D_CONTIGUOUS: - /* Filters cannot be used for contiguous data. */ - if (pline && pline->nfilters>0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "filters are not allowed for contiguous data"); - } - - /* Write directly to file if the dataset is in an external file */ - if (efl && efl->nused>0) { + if (efl.nused>0) { /* Iterate through the sequence vectors */ for(v=0; v<nseq; v++) { #ifdef H5_HAVE_PARALLEL - if (H5FD_MPIO_COLLECTIVE==xfer_mode) { - /* - * Currently supports same number of collective access. Need to - * be changed LATER to combine all reads into one collective MPIO - * call. - */ - unsigned long max, min, temp; - - temp = seq_len_arr[v]; - assert(temp==seq_len_arr[v]); /* verify no overflow */ - MPI_Allreduce(&temp, &max, 1, MPI_UNSIGNED_LONG, MPI_MAX, - H5FD_mpio_communicator(f->shared->lf)); - MPI_Allreduce(&temp, &min, 1, MPI_UNSIGNED_LONG, MPI_MIN, - H5FD_mpio_communicator(f->shared->lf)); + if (H5FD_MPIO_COLLECTIVE==xfer_mode) { + /* + * Currently supports same number of collective access. Need to + * be changed LATER to combine all reads into one collective MPIO + * call. + */ + unsigned long max, min, temp; + + temp = seq_len_arr[v]; + assert(temp==seq_len_arr[v]); /* verify no overflow */ + MPI_Allreduce(&temp, &max, 1, MPI_UNSIGNED_LONG, MPI_MAX, + H5FD_mpio_communicator(f->shared->lf)); + MPI_Allreduce(&temp, &min, 1, MPI_UNSIGNED_LONG, MPI_MIN, + H5FD_mpio_communicator(f->shared->lf)); #ifdef AKC - printf("seq_len=%lu, min=%lu, max=%lu\n", temp, min, max); + printf("seq_len=%lu, min=%lu, max=%lu\n", temp, min, max); #endif - if (max != min) - HRETURN_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, - "collective access with unequal number of blocks not supported yet"); - } + if (max != min) + HGOTO_ERROR(H5E_DATASET, H5E_WRITEERROR, FAIL, "collective access with unequal number of blocks not supported yet"); + } #endif /* Note: We can't use data sieve buffers for datasets in external files * because the 'addr' of all external files is set to 0 (above) and * all datasets in external files would alias to the same set of * file offsets, totally mixing up the data sieve buffer information. -QAK */ - if (H5O_efl_write(f, efl, file_offset_arr[v], seq_len_arr[v], real_buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "external data write failed"); - } + if (H5O_efl_write(f, &efl, file_offset_arr[v], seq_len_arr[v], real_buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "external data write failed"); /* Increment offset in buffer */ real_buf += seq_len_arr[v]; @@ -659,10 +644,8 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, max_data *= layout->dim[u]; /* Pass along the vector of sequences to write */ - if (H5F_contig_writev(f, max_data, H5FD_MEM_DRAW, layout->addr, nseq, seq_len_arr, file_offset_arr, dxpl_id, real_buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, - "block write failed"); - } + if (H5F_contig_writev(f, max_data, H5FD_MEM_DRAW, layout->addr, nseq, seq_len_arr, file_offset_arr, dxpl_id, real_buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "block write failed"); } /* end else */ break; @@ -670,13 +653,12 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, /* * This method is unable to access external raw data files */ - if (efl && efl->nused>0) { - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, - "chunking and external files are mutually exclusive"); - } + if (efl.nused>0) + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "chunking and external files are mutually exclusive"); + /* Compute the file offset coordinates and hyperslab size */ if((ndims=H5S_get_simple_extent_dims(file_space,dset_dims,NULL))<0) - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unable to retrieve dataspace dimensions"); + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unable to retrieve dataspace dimensions"); /* Build the array of cumulative hyperslab sizes */ /* (And set the memory offset to zero) */ @@ -735,11 +717,9 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Write out the partial hyperslab */ - if (H5F_istore_write(f, dxpl_id, layout, pline, fill, - hslab_size, mem_offset,coords, hslab_size, - buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); - } + if (H5F_istore_write(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset,coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); /* Increment the buffer offset */ buf=(const unsigned char *)buf+(partial_size*elmt_size); @@ -796,10 +776,9 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Write the full hyperslab in */ - if (H5F_istore_write(f, dxpl_id, layout, pline, fill, - hslab_size, mem_offset, coords, hslab_size, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); - } + if (H5F_istore_write(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); /* Increment the buffer offset */ buf=(const unsigned char *)buf+(full_size*elmt_size); @@ -843,11 +822,9 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Write out the partial hyperslab */ - if (H5F_istore_write(f, dxpl_id, layout, pline, - fill, hslab_size, mem_offset, coords, - hslab_size, buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); - } + if (H5F_istore_write(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); /* Increment the buffer offset */ buf=(const unsigned char *)buf+(partial_size*elmt_size); @@ -879,11 +856,9 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, hslab_size[ndims]=elmt_size; /* basic hyperslab size is the element */ /* Write out the final partial hyperslab */ - if (H5F_istore_write(f, dxpl_id, layout, pline, fill, - hslab_size, mem_offset, coords, hslab_size, - buf)<0) { - HRETURN_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); - } + if (H5F_istore_write(f, dxpl_id, layout, dc_plist, + hslab_size, mem_offset, coords, hslab_size, buf)<0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "chunked write failed"); /* Double-check the amount read in */ assert(seq_len==partial_size); @@ -898,9 +873,10 @@ H5F_seq_writev(H5F_t *f, hid_t dxpl_id, const struct H5O_layout_t *layout, default: assert("not implemented yet" && 0); - HRETURN_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); + HGOTO_ERROR(H5E_IO, H5E_UNSUPPORTED, FAIL, "unsupported storage layout"); } /* end switch() */ - FUNC_LEAVE(SUCCEED); +done: + FUNC_LEAVE(ret_value); } /* H5F_seq_writev() */ diff --git a/src/H5Ppkg.h b/src/H5Ppkg.h index b97ebb6..a8609f3 100644 --- a/src/H5Ppkg.h +++ b/src/H5Ppkg.h @@ -39,7 +39,7 @@ typedef enum { } H5P_class_mod_t; /* Define structure to hold property information */ -typedef struct H5P_genprop_tag { +typedef struct H5P_genprop_t { /* Values for this property */ unsigned xor_val; /* XOR'ed version of the name, for faster comparisons */ char *name; /* Name of property */ @@ -55,12 +55,12 @@ typedef struct H5P_genprop_tag { H5P_prp_copy_func_t copy; /* Function to call when a property is copied */ H5P_prp_close_func_t close; /* Function to call when a property is closed */ - struct H5P_genprop_tag *next; /* Pointer to the next property in this list */ + struct H5P_genprop_t *next; /* Pointer to the next property in this list */ } H5P_genprop_t; /* Define structure to hold class information */ -struct H5P_genclass_tag { - struct H5P_genclass_tag *parent; /* Pointer to parent class */ +struct H5P_genclass_t { + struct H5P_genclass_t *parent; /* Pointer to parent class */ char *name; /* Name of property list class */ size_t nprops; /* Number of properties in class */ unsigned hashsize; /* Hash table size */ @@ -82,7 +82,7 @@ struct H5P_genclass_tag { }; /* Define structure to hold property list information */ -struct H5P_genplist_tag { +struct H5P_genplist_t { H5P_genclass_t *pclass; /* Pointer to class info */ hid_t plist_id; /* Copy of the property list ID (for use in close callback) */ size_t nprops; /* Number of properties in class */ diff --git a/src/H5Pprivate.h b/src/H5Pprivate.h index ba054e3..c7b555b 100644 --- a/src/H5Pprivate.h +++ b/src/H5Pprivate.h @@ -22,8 +22,8 @@ #include "H5private.h" /* Forward declarations for anonymous H5P objects */ -typedef struct H5P_genplist_tag H5P_genplist_t; -typedef struct H5P_genclass_tag H5P_genclass_t; +typedef struct H5P_genplist_t H5P_genplist_t; +typedef struct H5P_genclass_t H5P_genclass_t; /* Private functions, not part of the publicly documented API */ __DLL__ herr_t H5P_init(void); @@ -1931,6 +1931,51 @@ H5Soffset_simple(hid_t space_id, const hssize_t *offset) /*------------------------------------------------------------------------- + * Function: H5S_set_extent + * + * Purpose: Modify the dimensions of a data space. Based on H5S_extend + * + * Return: Success: Non-negative + * + * Failure: Negative + * + * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu + * + * Date: March 13, 2002 + * + *------------------------------------------------------------------------- + */ +herr_t +H5S_set_extent( H5S_t *space, const hsize_t *size ) +{ + herr_t ret_value=SUCCEED; + unsigned u; + + FUNC_ENTER( H5S_set_extent, FAIL ); + + /* Check args */ + assert( space && H5S_SIMPLE==space->extent.type ); + assert( size); + + /* Check for changing dimensions of a scalar dataspace */ + if(space->extent.u.simple.rank==0) + + /* Verify that the dimensions being changed are allowed to change */ + for ( u = 0; u < space->extent.u.simple.rank; u++ ) + if ( space->extent.u.simple.max && + H5S_UNLIMITED != space->extent.u.simple.max[u] && + space->extent.u.simple.max[u]<size[u] ) + HRETURN_ERROR (H5E_ARGS, H5E_BADVALUE, FAIL,"dimension cannot be modified"); + + /* Update dimensions with new values */ + for ( u = 0; u < space->extent.u.simple.rank; u++ ) + space->extent.u.simple.size[u] = size[u]; + + FUNC_LEAVE( ret_value ); +} + + +/*------------------------------------------------------------------------- * Function: H5S_debug * * Purpose: Prints debugging information about a data space. @@ -1973,46 +2018,3 @@ H5S_debug(H5F_t *f, const void *_mesg, FILE *stream, int indent, int fwidth) FUNC_LEAVE(SUCCEED); } - -/*------------------------------------------------------------------------- - * Function: H5S_set_extent - * - * Purpose: Modify the dimensions of a data space. Based on H5S_extend - * - * Return: Success: Number of dimensions whose size increased. - * - * Failure: Negative - * - * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu - * - * Date: March 13, 2002 - * - *------------------------------------------------------------------------- - */ -int H5S_set_extent( H5S_t *space, const hsize_t *size ) -{ - int ret_value; - unsigned u; - - FUNC_ENTER( H5S_set_extent, FAIL ); - - /* Check args */ - assert( space && H5S_SIMPLE==space->extent.type ); - assert( size); - - for ( u = 0; u < space->extent.u.simple.rank; u++ ) - if ( space->extent.u.simple.max && - H5S_UNLIMITED != space->extent.u.simple.max[u] && - space->extent.u.simple.max[u]<size[u] ) - HRETURN_ERROR (H5E_ARGS, H5E_BADVALUE, FAIL,"dimension cannot be modified"); - - /* Update dimensions with new values */ - for ( u = 0; u < space->extent.u.simple.rank; u++ ) - space->extent.u.simple.size[u] = size[u]; - - /* Set return value */ - ret_value=space->extent.u.simple.rank; - - FUNC_LEAVE( ret_value ); -} - diff --git a/src/H5Sall.c b/src/H5Sall.c index a511cb8..2efdfc9 100644 --- a/src/H5Sall.c +++ b/src/H5Sall.c @@ -27,16 +27,12 @@ static herr_t H5S_all_init (const H5S_t *space, size_t elmt_size, H5S_sel_iter_t static hsize_t H5S_all_favail (const H5S_t *space, const H5S_sel_iter_t *iter, hsize_t max); static hsize_t H5S_all_fgath (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, void *buf/*out*/); static herr_t H5S_all_fscat (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, const void *buf); @@ -158,8 +154,7 @@ H5S_all_favail (const H5S_t * UNUSED space, const H5S_sel_iter_t *sel_iter, hsiz */ static hsize_t H5S_all_fgath (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, const struct H5O_efl_t *efl, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, void *buf/*out*/) @@ -186,7 +181,7 @@ H5S_all_fgath (H5F_t *f, const struct H5O_layout_t *layout, * Read piece from file. */ H5_CHECK_OVERFLOW(actual_bytes,hsize_t,size_t); - if (H5F_seq_read(f, dxpl_id, layout, pline, fill, efl, file_space, + if (H5F_seq_read(f, dxpl_id, layout, dc_plist, file_space, elmt_size, (size_t)actual_bytes, buf_off, buf/*out*/)<0) { HRETURN_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); } @@ -221,8 +216,7 @@ H5S_all_fgath (H5F_t *f, const struct H5O_layout_t *layout, */ static herr_t H5S_all_fscat (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, const void *buf) { @@ -248,7 +242,7 @@ H5S_all_fscat (H5F_t *f, const struct H5O_layout_t *layout, * Write piece from file. */ H5_CHECK_OVERFLOW(actual_bytes,hsize_t,size_t); - if (H5F_seq_write(f, dxpl_id, layout, pline, fill, efl, file_space, + if (H5F_seq_write(f, dxpl_id, layout, dc_plist, file_space, elmt_size, (size_t)actual_bytes, buf_off, buf/*out*/)<0) { HRETURN_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); } @@ -443,10 +437,9 @@ done: *------------------------------------------------------------------------- */ herr_t -H5S_all_read(H5F_t *f, const H5O_layout_t *layout, const H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const H5O_efl_t *efl, size_t elmt_size, const H5S_t *file_space, - const H5S_t *mem_space, hid_t dxpl_id, void *_buf/*out*/) +H5S_all_read(H5F_t *f, const H5O_layout_t *layout, H5P_genplist_t *dc_plist, + size_t elmt_size, const H5S_t *file_space, + const H5S_t *mem_space, hid_t dxpl_id, void *_buf/*out*/) { H5S_hyper_span_t *file_span=NULL,*mem_span=NULL; /* Hyperslab span node */ char *buf=(char*)_buf; /* Get pointer to buffer */ @@ -544,13 +537,13 @@ for (u=0; u<=mem_space->extent.u.simple.rank; u++) printf("file_offset[%u]=%lu\n",u,(unsigned long)file_offset[u]); #endif /* QAK */ /* Read data from the file */ - if (H5F_arr_read(f, dxpl_id, layout, pline, fill, efl, size, + if (H5F_arr_read(f, dxpl_id, layout, dc_plist, size, mem_size, mem_offset, file_offset, buf/*out*/)<0) HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "unable to read data from the file"); done: FUNC_LEAVE(ret_value); -} +} /* end H5S_all_read() */ /*------------------------------------------------------------------------- @@ -578,10 +571,7 @@ done: *------------------------------------------------------------------------- */ herr_t -H5S_all_write(H5F_t *f, const struct H5O_layout_t *layout, - const H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const H5O_efl_t *efl, +H5S_all_write(H5F_t *f, const struct H5O_layout_t *layout, H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, const void *_buf) { @@ -682,13 +672,13 @@ for (u=0; u<=mem_space->extent.u.simple.rank; u++) printf("file_offset[%u]=%lu\n",u,(unsigned long)file_offset[u]); #endif /* QAK */ /* Write data to the file */ - if (H5F_arr_write(f, dxpl_id, layout, pline, fill, efl, size, + if (H5F_arr_write(f, dxpl_id, layout, dc_plist, size, mem_size, mem_offset, file_offset, buf)<0) HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "unable to write data to the file"); done: FUNC_LEAVE(ret_value); -} +} /* end H5S_all_write() */ /*-------------------------------------------------------------------------- diff --git a/src/H5Shyper.c b/src/H5Shyper.c index 30a1331..6663d98 100644 --- a/src/H5Shyper.c +++ b/src/H5Shyper.c @@ -44,15 +44,11 @@ static herr_t H5S_hyper_init (const H5S_t *space, size_t elmt_size, H5S_sel_iter static hsize_t H5S_hyper_favail (const H5S_t UNUSED *space, const H5S_sel_iter_t *sel_iter, hsize_t max); static hsize_t H5S_hyper_fgath (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, void *_buf/*out*/); static herr_t H5S_hyper_fscat (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, const void *_buf); static hsize_t H5S_hyper_mgath (const void *_buf, size_t elmt_size, @@ -396,9 +392,7 @@ H5S_hyper_iter_next (const H5S_t *file_space, H5S_sel_iter_t *file_iter) */ static hsize_t H5S_hyper_fread (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *space, H5S_sel_iter_t *iter, hsize_t nelem, hid_t dxpl_id, void *_buf/*out*/) { @@ -432,9 +426,6 @@ printf("%s: Called!\n",FUNC); /* Check args */ assert(f); assert(layout); - assert(pline); - assert(fill); - assert(efl); assert(elmt_size>0); assert(space); assert(iter); @@ -492,10 +483,9 @@ printf("%s: Called!\n",FUNC); if(span_size>io_bytes_left) span_size=io_bytes_left; - if (H5F_seq_read(f, dxpl_id, layout, pline, fill, efl, space, - elmt_size, span_size, loc_off, dst/*out*/)<0) { + if (H5F_seq_read(f, dxpl_id, layout, dc_plist, space, + elmt_size, span_size, loc_off, dst/*out*/)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); - } /* Increment offset in destination */ dst+=span_size; @@ -653,10 +643,9 @@ partial_done: /* Yes, goto's are evil, so sue me... :-) */ /* If the sequence & offset arrays are full, read them in */ if(nseq>=vector_size) { /* Read in the sequences */ - if (H5F_seq_readv(f, dxpl_id, layout, pline, fill, efl, space, - elmt_size, nseq, seq_len_arr, buf_off_arr, dst/*out*/)<0) { + if (H5F_seq_readv(f, dxpl_id, layout, dc_plist, space, + elmt_size, nseq, seq_len_arr, buf_off_arr, dst/*out*/)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); - } /* end if */ /* Increment the offset of the destination buffer */ dst+=(last_io_bytes_left-io_bytes_left); @@ -685,10 +674,9 @@ partial_done: /* Yes, goto's are evil, so sue me... :-) */ /* If the sequence & offset arrays are full, read them in */ if(nseq>=vector_size) { /* Read in the sequences */ - if (H5F_seq_readv(f, dxpl_id, layout, pline, fill, efl, space, - elmt_size, nseq, seq_len_arr, buf_off_arr, dst/*out*/)<0) { + if (H5F_seq_readv(f, dxpl_id, layout, dc_plist, space, + elmt_size, nseq, seq_len_arr, buf_off_arr, dst/*out*/)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); - } /* end if */ /* Increment the offset of the destination buffer */ dst+=(last_io_bytes_left-io_bytes_left); @@ -805,10 +793,9 @@ partial_done: /* Yes, goto's are evil, so sue me... :-) */ /* Check for any stored sequences which need to be flushed */ if(nseq>0) { /* Read in the sequence */ - if (H5F_seq_readv(f, dxpl_id, layout, pline, fill, efl, space, - elmt_size, nseq, seq_len_arr, buf_off_arr, dst/*out*/)<0) { + if (H5F_seq_readv(f, dxpl_id, layout, dc_plist, space, + elmt_size, nseq, seq_len_arr, buf_off_arr, dst/*out*/)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); - } /* end if */ } /* end if */ /* Increment amount of I/O performed */ @@ -846,9 +833,7 @@ done: */ static hsize_t H5S_hyper_fread_opt (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, void *_buf/*out*/) { @@ -977,10 +962,9 @@ printf("%s: buf_off=%ld, actual_read=%d, actual_bytes=%d\n",FUNC,(long)buf_off,( #endif /* QAK */ /* Read in the rest of the sequence */ - if (H5F_seq_read(f, dxpl_id, layout, pline, fill, efl, file_space, - elmt_size, actual_bytes, buf_off, buf/*out*/)<0) { + if (H5F_seq_read(f, dxpl_id, layout, dc_plist, file_space, + elmt_size, actual_bytes, buf_off, buf/*out*/)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); - } /* Increment the offset of the buffer */ buf+=actual_bytes; @@ -1205,10 +1189,9 @@ for(i=0; i<file_space->extent.u.simple.rank; i++) /* If the sequence & offset arrays are full, read them in */ if(nseq>=vector_size) { /* Read in the sequences */ - if (H5F_seq_readv(f, dxpl_id, layout, pline, fill, efl, file_space, - elmt_size, nseq, seq_len_arr, buf_off_arr, buf/*out*/)<0) { + if (H5F_seq_readv(f, dxpl_id, layout, dc_plist, file_space, + elmt_size, nseq, seq_len_arr, buf_off_arr, buf/*out*/)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); - } /* end if */ /* Increment the offset of the destination buffer */ buf+=tot_buf_size; @@ -1277,10 +1260,9 @@ for(i=0; i<file_space->extent.u.simple.rank; i++) /* If the sequence & offset arrays are full, read them in */ if(nseq>=vector_size) { /* Read in the sequences */ - if (H5F_seq_readv(f, dxpl_id, layout, pline, fill, efl, file_space, - elmt_size, nseq, seq_len_arr, buf_off_arr, buf/*out*/)<0) { + if (H5F_seq_readv(f, dxpl_id, layout, dc_plist, file_space, + elmt_size, nseq, seq_len_arr, buf_off_arr, buf/*out*/)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); - } /* end if */ /* Increment the offset of the destination buffer */ buf+=tot_buf_size; @@ -1321,10 +1303,9 @@ for(i=0; i<file_space->extent.u.simple.rank; i++) /* If the sequence & offset arrays are full, read them in */ if(nseq>=vector_size) { /* Read in the sequences */ - if (H5F_seq_readv(f, dxpl_id, layout, pline, fill, efl, file_space, - elmt_size, nseq, seq_len_arr, buf_off_arr, buf/*out*/)<0) { + if (H5F_seq_readv(f, dxpl_id, layout, dc_plist, file_space, + elmt_size, nseq, seq_len_arr, buf_off_arr, buf/*out*/)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); - } /* end if */ /* Increment the offset of the destination buffer */ buf+=tot_buf_size; @@ -1386,10 +1367,9 @@ for(i=0; i<file_space->extent.u.simple.rank; i++) /* Check for any stored sequences which need to be flushed */ if(nseq>0) { /* Read in the sequence */ - if (H5F_seq_readv(f, dxpl_id, layout, pline, fill, efl, file_space, - elmt_size, nseq, seq_len_arr, buf_off_arr, buf/*out*/)<0) { + if (H5F_seq_readv(f, dxpl_id, layout, dc_plist, file_space, + elmt_size, nseq, seq_len_arr, buf_off_arr, buf/*out*/)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); - } /* end if */ } /* end if */ /* Subtract out the selection offset */ @@ -1443,9 +1423,7 @@ done: */ static hsize_t H5S_hyper_fgath (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, void *_buf/*out*/) { @@ -1466,11 +1444,11 @@ H5S_hyper_fgath (H5F_t *f, const struct H5O_layout_t *layout, /* Check for the special case of just one H5Sselect_hyperslab call made */ if(file_space->select.sel_info.hslab.diminfo!=NULL) { /* Use optimized call to read in regular hyperslab */ - num_read=H5S_hyper_fread_opt(f,layout,pline,fill,efl,elmt_size,file_space,file_iter,nelmts,dxpl_id,_buf); + num_read=H5S_hyper_fread_opt(f,layout,dc_plist,elmt_size,file_space,file_iter,nelmts,dxpl_id,_buf); } /* end if */ else { /* Perform generic hyperslab operation */ - num_read=H5S_hyper_fread(f,layout,pline,fill,efl,elmt_size,file_space,file_iter,nelmts,dxpl_id,_buf); + num_read=H5S_hyper_fread(f,layout,dc_plist,elmt_size,file_space,file_iter,nelmts,dxpl_id,_buf); } /* end else */ FUNC_LEAVE (ret_value==SUCCEED ? num_read : 0); @@ -1495,9 +1473,7 @@ H5S_hyper_fgath (H5F_t *f, const struct H5O_layout_t *layout, */ static hsize_t H5S_hyper_fwrite (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *space, H5S_sel_iter_t *iter, hsize_t nelem, hid_t dxpl_id, const void *_buf) { @@ -1531,9 +1507,6 @@ printf("%s: Called!\n",FUNC); /* Check args */ assert(f); assert(layout); - assert(pline); - assert(fill); - assert(efl); assert(elmt_size>0); assert(space); assert(iter); @@ -1591,10 +1564,9 @@ printf("%s: Called!\n",FUNC); if(span_size>io_bytes_left) span_size=io_bytes_left; - if (H5F_seq_write(f, dxpl_id, layout, pline, fill, efl, space, - elmt_size, span_size, loc_off, src)<0) { + if (H5F_seq_write(f, dxpl_id, layout, dc_plist, space, + elmt_size, span_size, loc_off, src)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); - } /* end if */ /* Increment offset in destination */ src+=span_size; @@ -1752,10 +1724,9 @@ partial_done: /* Yes, goto's are evil, so sue me... :-) */ /* If the sequence & offset arrays are full, read them in */ if(nseq>=vector_size) { /* Write out the sequences */ - if (H5F_seq_writev(f, dxpl_id, layout, pline, fill, efl, space, - elmt_size, nseq, seq_len_arr, buf_off_arr, src)<0) { + if (H5F_seq_writev(f, dxpl_id, layout, dc_plist, space, + elmt_size, nseq, seq_len_arr, buf_off_arr, src)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); - } /* end if */ /* Increment the offset of the destination buffer */ src+=(last_io_bytes_left-io_bytes_left); @@ -1784,10 +1755,9 @@ partial_done: /* Yes, goto's are evil, so sue me... :-) */ /* If the sequence & offset arrays are full, read them in */ if(nseq>=vector_size) { /* Write out the sequences */ - if (H5F_seq_writev(f, dxpl_id, layout, pline, fill, efl, space, - elmt_size, nseq, seq_len_arr, buf_off_arr, src)<0) { + if (H5F_seq_writev(f, dxpl_id, layout, dc_plist, space, + elmt_size, nseq, seq_len_arr, buf_off_arr, src)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); - } /* end if */ /* Increment the offset of the destination buffer */ src+=(last_io_bytes_left-io_bytes_left); @@ -1904,10 +1874,9 @@ partial_done: /* Yes, goto's are evil, so sue me... :-) */ /* Check for any stored sequences which need to be flushed */ if(nseq>0) { /* Write out the sequence */ - if (H5F_seq_writev(f, dxpl_id, layout, pline, fill, efl, space, - elmt_size, nseq, seq_len_arr, buf_off_arr, src)<0) { + if (H5F_seq_writev(f, dxpl_id, layout, dc_plist, space, + elmt_size, nseq, seq_len_arr, buf_off_arr, src)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); - } /* end if */ } /* end if */ /* Increment amount of I/O performed */ @@ -1945,9 +1914,7 @@ done: */ static hsize_t H5S_hyper_fwrite_opt (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, const void *_buf) { @@ -2076,10 +2043,9 @@ printf("%s: buf_off=%ld, actual_write=%d, actual_bytes=%d\n",FUNC,(long)buf_off, #endif /* QAK */ /* Write out the rest of the sequence */ - if (H5F_seq_write(f, dxpl_id, layout, pline, fill, efl, file_space, - elmt_size, actual_bytes, buf_off, buf)<0) { + if (H5F_seq_write(f, dxpl_id, layout, dc_plist, file_space, + elmt_size, actual_bytes, buf_off, buf)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); - } /* Increment the offset of the buffer */ buf+=actual_bytes; @@ -2304,10 +2270,9 @@ for(i=0; i<file_space->extent.u.simple.rank; i++) /* If the sequence & offset arrays are full, write them out */ if(nseq>=vector_size) { /* Write out the sequences */ - if (H5F_seq_writev(f, dxpl_id, layout, pline, fill, efl, file_space, - elmt_size, nseq, seq_len_arr, buf_off_arr, buf)<0) { - HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); - } /* end if */ + if (H5F_seq_writev(f, dxpl_id, layout, dc_plist, file_space, + elmt_size, nseq, seq_len_arr, buf_off_arr, buf)<0) + HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); /* Increment the offset of the destination buffer */ buf+=tot_buf_size; @@ -2376,10 +2341,9 @@ for(i=0; i<file_space->extent.u.simple.rank; i++) /* If the sequence & offset arrays are full, write them out */ if(nseq>=vector_size) { /* Write out the sequences */ - if (H5F_seq_writev(f, dxpl_id, layout, pline, fill, efl, file_space, - elmt_size, nseq, seq_len_arr, buf_off_arr, buf)<0) { + if (H5F_seq_writev(f, dxpl_id, layout, dc_plist, file_space, + elmt_size, nseq, seq_len_arr, buf_off_arr, buf)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); - } /* end if */ /* Increment the offset of the destination buffer */ buf+=tot_buf_size; @@ -2420,10 +2384,9 @@ for(i=0; i<file_space->extent.u.simple.rank; i++) /* If the sequence & offset arrays are full, write them out */ if(nseq>=vector_size) { /* Write out the sequences */ - if (H5F_seq_writev(f, dxpl_id, layout, pline, fill, efl, file_space, - elmt_size, nseq, seq_len_arr, buf_off_arr, buf)<0) { + if (H5F_seq_writev(f, dxpl_id, layout, dc_plist, file_space, + elmt_size, nseq, seq_len_arr, buf_off_arr, buf)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); - } /* end if */ /* Increment the offset of the destination buffer */ buf+=tot_buf_size; @@ -2485,10 +2448,9 @@ for(i=0; i<file_space->extent.u.simple.rank; i++) /* Check for any stored sequences which need to be flushed */ if(nseq>0) { /* Write out the sequence */ - if (H5F_seq_writev(f, dxpl_id, layout, pline, fill, efl, file_space, - elmt_size, nseq, seq_len_arr, buf_off_arr, buf)<0) { + if (H5F_seq_writev(f, dxpl_id, layout, dc_plist, file_space, + elmt_size, nseq, seq_len_arr, buf_off_arr, buf)<0) HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); - } /* end if */ } /* end if */ /* Subtract out the selection offset */ @@ -2536,9 +2498,7 @@ done: */ static herr_t H5S_hyper_fscat (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, const void *_buf) { @@ -2559,11 +2519,11 @@ H5S_hyper_fscat (H5F_t *f, const struct H5O_layout_t *layout, /* Check for the special case of just one H5Sselect_hyperslab call made */ if(file_space->select.sel_info.hslab.diminfo!=NULL) { /* Use optimized call to write out regular hyperslab */ - num_written=H5S_hyper_fwrite_opt(f,layout,pline,fill,efl,elmt_size,file_space,file_iter,nelmts,dxpl_id,_buf); + num_written=H5S_hyper_fwrite_opt(f,layout,dc_plist,elmt_size,file_space,file_iter,nelmts,dxpl_id,_buf); } /* end if */ else { /* Perform generic hyperslab operation */ - num_written=H5S_hyper_fwrite(f,layout,pline,fill,efl,elmt_size,file_space,file_iter,nelmts,dxpl_id,_buf); + num_written=H5S_hyper_fwrite(f,layout,dc_plist,elmt_size,file_space,file_iter,nelmts,dxpl_id,_buf); } /* end else */ FUNC_LEAVE (ret_value==FAIL ? ret_value : (num_written >0) ? SUCCEED : FAIL); diff --git a/src/H5Smpio.c b/src/H5Smpio.c index 6cfb4bc..2f2bd89 100644 --- a/src/H5Smpio.c +++ b/src/H5Smpio.c @@ -58,10 +58,8 @@ H5S_mpio_space_type( const H5S_t *space, const size_t elmt_size, size_t *count, hbool_t *is_derived_type ); static herr_t -H5S_mpio_spaces_xfer(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t UNUSED *pline, - const struct H5O_fill_t UNUSED *fill, - const struct H5O_efl_t UNUSED *efl, size_t elmt_size, +H5S_mpio_spaces_xfer(H5F_t *f, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, void *buf/*out*/, const hbool_t do_write); @@ -549,11 +547,9 @@ H5S_mpio_space_type( const H5S_t *space, const size_t elmt_size, * *------------------------------------------------------------------------- */ -herr_t -H5S_mpio_spaces_xfer(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t UNUSED *pline, - const struct H5O_fill_t UNUSED *fill, - const struct H5O_efl_t UNUSED *efl, size_t elmt_size, +static herr_t +H5S_mpio_spaces_xfer(H5F_t *f, const H5O_layout_t *layout, + H5P_genplist_t UNUSED *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, void *buf /*out*/, const hbool_t do_write ) @@ -703,10 +699,8 @@ done: *------------------------------------------------------------------------- */ herr_t -H5S_mpio_spaces_read(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, +H5S_mpio_spaces_read(H5F_t *f, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, void *buf/*out*/) { @@ -714,7 +708,7 @@ H5S_mpio_spaces_read(H5F_t *f, const struct H5O_layout_t *layout, FUNC_ENTER (H5S_mpio_spaces_read, FAIL); - ret_value = H5S_mpio_spaces_xfer(f, layout, pline, fill, efl, elmt_size, + ret_value = H5S_mpio_spaces_xfer(f, layout, dc_plist, elmt_size, file_space, mem_space, dxpl_id, buf, 0/*read*/); @@ -743,10 +737,8 @@ H5S_mpio_spaces_read(H5F_t *f, const struct H5O_layout_t *layout, *------------------------------------------------------------------------- */ herr_t -H5S_mpio_spaces_write(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, +H5S_mpio_spaces_write(H5F_t *f, const H5O_layout_t *layout, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, const void *buf) { @@ -754,7 +746,7 @@ H5S_mpio_spaces_write(H5F_t *f, const struct H5O_layout_t *layout, FUNC_ENTER (H5S_mpio_spaces_write, FAIL); - ret_value = H5S_mpio_spaces_xfer(f, layout, pline, fill, efl, elmt_size, + ret_value = H5S_mpio_spaces_xfer(f, layout, dc_plist, elmt_size, file_space, mem_space, dxpl_id, (void*)buf, 1/*write*/); diff --git a/src/H5Spkg.h b/src/H5Spkg.h index bc88e6e..1ab7dd6 100644 --- a/src/H5Spkg.h +++ b/src/H5Spkg.h @@ -148,15 +148,11 @@ __DLL__ herr_t H5S_all_select_serialize(const H5S_t *space, uint8_t *buf); __DLL__ herr_t H5S_all_select_deserialize(H5S_t *space, const uint8_t *buf); __DLL__ herr_t H5S_all_bounds(H5S_t *space, hsize_t *start, hsize_t *end); __DLL__ herr_t H5S_all_read(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, void *buf/*out*/); __DLL__ herr_t H5S_all_write(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, const void *buf); __DLL__ herr_t H5S_all_select_iterate(void *buf, hid_t type_id, H5S_t *space, diff --git a/src/H5Spoint.c b/src/H5Spoint.c index de5d875..2fa6a2d 100644 --- a/src/H5Spoint.c +++ b/src/H5Spoint.c @@ -28,17 +28,13 @@ static herr_t H5S_point_init (const H5S_t *space, size_t elmt_size, H5S_sel_iter static hsize_t H5S_point_favail (const H5S_t *space, const H5S_sel_iter_t *iter, hsize_t max); static hsize_t H5S_point_fgath (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, - const H5S_t *file_space, + H5P_genplist_t *dc_plist, + size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, void *buf/*out*/); static herr_t H5S_point_fscat (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, - const H5S_t *file_space, + H5P_genplist_t *dc_plist, + size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, const void *buf); static hsize_t H5S_point_mgath (const void *_buf, size_t elmt_size, @@ -283,8 +279,7 @@ H5S_point_favail (const H5S_t * UNUSED space, */ static hsize_t H5S_point_fgath (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, const struct H5O_efl_t *efl, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, void *_buf/*out*/) @@ -335,18 +330,9 @@ H5S_point_fgath (H5F_t *f, const struct H5O_layout_t *layout, file_offset[u] += file_space->select.offset[u]; /* Go read the point */ - if (H5F_arr_read(f, dxpl_id, layout, pline, fill, efl, hsize, hsize, zero, file_offset, buf/*out*/)<0) { + if (H5F_arr_read(f, dxpl_id, layout, dc_plist, hsize, hsize, zero, file_offset, buf/*out*/)<0) HRETURN_ERROR(H5E_DATASPACE, H5E_READERROR, 0, "read error"); - } -#ifdef QAK - printf("%s: check 3.0\n",FUNC); - for(u=0; u<ndims; u++) { - printf("%s: %u - pnt=%d\n", FUNC, (unsigned)u, (int)file_iter->pnt.curr->pnt[u]); - printf("%s: %u - file_offset=%d\n", FUNC, (unsigned)u, (int)file_offset[u]); - } - printf("%s: *buf=%u\n",FUNC,(unsigned)*buf); -#endif /* QAK */ /* Increment the offset of the buffer */ buf+=elmt_size; @@ -386,8 +372,7 @@ H5S_point_fgath (H5F_t *f, const struct H5O_layout_t *layout, */ static herr_t H5S_point_fscat (H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, const struct H5O_efl_t *efl, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, const void *_buf) @@ -411,10 +396,9 @@ H5S_point_fscat (H5F_t *f, const struct H5O_layout_t *layout, assert (nelmts>0); assert (buf); -#ifdef QAK - printf("%s: check 1.0, layout->ndims=%d\n",FUNC,(int)layout->ndims); -#endif /* QAK */ + /* Hold the number of dimensions of the dataspace */ ndims=file_space->extent.u.simple.rank; + /* initialize hyperslab size and offset in memory buffer */ for(u=0; u<ndims+1; u++) { hsize[u]=1; /* hyperslab size is 1, except for last element */ @@ -428,14 +412,6 @@ H5S_point_fscat (H5F_t *f, const struct H5O_layout_t *layout, */ num_written=0; while(num_written<nelmts && file_iter->pnt.elmt_left>0) { -#ifdef QAK - printf("%s: check 2.0\n",FUNC); - { - for(u=0; u<ndims; u++) { - printf("%s: %u - pnt=%d\n", FUNC, (unsigned)u, (int)file_iter->pnt.curr->pnt[u]); - } - } -#endif /* QAK */ /* Copy the location of the point to get */ HDmemcpy(file_offset,file_iter->pnt.curr->pnt,ndims*sizeof(hssize_t)); file_offset[ndims] = 0; @@ -444,18 +420,9 @@ H5S_point_fscat (H5F_t *f, const struct H5O_layout_t *layout, for(u=0; u<file_space->extent.u.simple.rank; u++) file_offset[u] += file_space->select.offset[u]; -#ifdef QAK - printf("%s: check 3.0\n",FUNC); - for(u=0; u<ndims; u++) { - printf("%s: %u - pnt=%d\n", FUNC,(unsigned)u,(int)file_iter->pnt.curr->pnt[u]); - printf("%s: %u - file_offset=%d\n", FUNC,(unsigned)u,(int)file_offset[u]); - } - printf("%s: *buf=%u\n",FUNC,(unsigned)*buf); -#endif /* QAK */ /* Go write the point */ - if (H5F_arr_write(f, dxpl_id, layout, pline, fill, efl, hsize, hsize, zero, file_offset, buf)<0) { + if (H5F_arr_write(f, dxpl_id, layout, dc_plist, hsize, hsize, zero, file_offset, buf)<0) HRETURN_ERROR(H5E_DATASPACE, H5E_WRITEERROR, 0, "write error"); - } /* Increment the offset of the buffer */ buf+=elmt_size; @@ -466,9 +433,6 @@ H5S_point_fscat (H5F_t *f, const struct H5O_layout_t *layout, /* Advance the point iterator */ file_iter->pnt.elmt_left--; file_iter->pnt.curr=file_iter->pnt.curr->next; -#ifdef QAK - printf("%s: check 5.0, file_iter->pnt.curr=%p\n", FUNC,file_iter->pnt.curr); -#endif } /* end while */ FUNC_LEAVE (num_written>0 ? SUCCEED : FAIL); diff --git a/src/H5Sprivate.h b/src/H5Sprivate.h index 12faf49..bb3e594 100644 --- a/src/H5Sprivate.h +++ b/src/H5Sprivate.h @@ -23,6 +23,7 @@ #include "H5Dpublic.h" #include "H5Fprivate.h" #include "H5Oprivate.h" +#include "H5Pprivate.h" #define H5S_RESERVED_ATOMS 2 @@ -93,17 +94,13 @@ typedef struct H5S_fconv_t { /* Gather elements from disk to type conversion buffer */ hsize_t (*gath)(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, void *tconv_buf/*out*/); /* Scatter elements from type conversion buffer to disk */ herr_t (*scat)(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, H5S_sel_iter_t *file_iter, hsize_t nelmts, hid_t dxpl_id, const void *tconv_buf); } H5S_fconv_t; @@ -139,18 +136,14 @@ typedef struct H5S_conv_t { /* Read from file to application w/o intermediate scratch buffer */ herr_t (*read)(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, void *buf/*out*/); /* Write directly from app buffer to file */ herr_t (*write)(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, size_t elmt_size, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, const void *buf); @@ -210,7 +203,7 @@ __DLL__ herr_t H5S_extent_release(H5S_t *space); __DLL__ herr_t H5S_select_release(H5S_t *space); __DLL__ hssize_t H5S_get_select_npoints(const H5S_t *space); __DLL__ int H5S_extend(H5S_t *space, const hsize_t *size); -__DLL__ int H5S_set_extent(H5S_t *space, const hsize_t *size); +__DLL__ herr_t H5S_set_extent(H5S_t *space, const hsize_t *size); __DLL__ htri_t H5S_select_valid(const H5S_t *space); __DLL__ herr_t H5S_debug(H5F_t *f, const void *_mesg, FILE *stream, int indent, int fwidth); @@ -243,9 +236,7 @@ __DLL__ htri_t H5S_all_opt_possible(const H5S_t *mem_space, /* MPI-IO function to read directly from app buffer to file rky980813 */ __DLL__ herr_t H5S_mpio_spaces_read(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, void *buf/*out*/); @@ -253,9 +244,7 @@ __DLL__ herr_t H5S_mpio_spaces_read(H5F_t *f, /* MPI-IO function to write directly from app buffer to file rky980813 */ __DLL__ herr_t H5S_mpio_spaces_write(H5F_t *f, const struct H5O_layout_t *layout, - const struct H5O_pline_t *pline, - const struct H5O_fill_t *fill, - const struct H5O_efl_t *efl, + H5P_genplist_t *dc_plist, size_t elmt_size, const H5S_t *file_space, const H5S_t *mem_space, hid_t dxpl_id, const void *buf); diff --git a/src/H5Sselect.c b/src/H5Sselect.c index e282006..32bf3ff 100644 --- a/src/H5Sselect.c +++ b/src/H5Sselect.c @@ -1567,7 +1567,7 @@ H5S_select_regular(const H5S_t *space) herr_t H5S_select_fill(const void *_fill, size_t fill_size, const H5S_t *space, void *buf) { - const void *fill=_fill; /* Alias for fill-value buffer */ + void *fill=_fill; /* Alias for fill-value buffer */ herr_t ret_value=FAIL; /* return value */ FUNC_ENTER (H5S_select_fill, FAIL); |