diff options
Diffstat (limited to 'src/H5Dchunk.c')
| -rw-r--r-- | src/H5Dchunk.c | 392 |
1 files changed, 392 insertions, 0 deletions
diff --git a/src/H5Dchunk.c b/src/H5Dchunk.c index 082aac3..4976075 100644 --- a/src/H5Dchunk.c +++ b/src/H5Dchunk.c @@ -216,6 +216,18 @@ typedef struct H5D_chunk_readvv_ud_t { const H5D_t *dset; /* Dataset to operate on */ } H5D_chunk_readvv_ud_t; +typedef struct H5D_chunk_info_iter_ud_t { + hsize_t scaled[H5O_LAYOUT_NDIMS]; /* Logical offset of the chunk */ + hsize_t ndims; /* Number of dimensions in the dataset */ + uint32_t nbytes; /* Size of stored data in the chunk */ + unsigned filter_mask; /* Excluded filters */ + haddr_t chunk_addr; /* Address of the chunk in file */ + hsize_t chunk_idx; /* Chunk index, where the iteration needs to stop */ + hsize_t curr_idx; /* Current index, where the iteration is */ + unsigned idx_hint; /* Index of chunk in cache, if present */ + hbool_t found; /* Whether the chunk was found */ +} H5D_chunk_info_iter_ud_t; + /* Callback info for file selection iteration */ typedef struct H5D_chunk_file_iter_ud_t { H5D_chunk_map_t *fm; /* File->memory chunk mapping info */ @@ -252,6 +264,11 @@ static herr_t H5D__chunk_flush(H5D_t *dset); static herr_t H5D__chunk_io_term(const H5D_chunk_map_t *fm); static herr_t H5D__chunk_dest(H5D_t *dset); +/* Chunk query operation callbacks */ +static int H5D__get_num_chunks_cb(const H5D_chunk_rec_t *chunk_rec, void *_udata); +static int H5D__get_chunk_info_cb(const H5D_chunk_rec_t *chunk_rec, void *_udata); +static int H5D__get_chunk_info_by_coord_cb(const H5D_chunk_rec_t *chunk_rec, void *_udata); + /* "Nonexistent" layout operation callback */ static ssize_t H5D__nonexistent_readvv(const H5D_io_info_t *io_info, @@ -6956,3 +6973,378 @@ done: FUNC_LEAVE_NOAPI(ret_value) } /* end H5D__chunk_format_convert() */ + +/*------------------------------------------------------------------------- + * Function: H5D__get_num_chunks_cb + * + * Purpose: Callback function that increments the number of written + * chunks in the dataset. + * + * Note: Currently, this function only gets the number of all written + * chunks, regardless the dataspace. + * + * Return: H5_ITER_CONT + * + * Programmer: Binh-Minh Ribler + * June 2019 (HDFFV-10677) + * + *------------------------------------------------------------------------- + */ +static int +H5D__get_num_chunks_cb(const H5D_chunk_rec_t H5_ATTR_UNUSED *chunk_rec, void *_udata) +{ + hsize_t *num_chunks = (hsize_t *)_udata; + int ret_value = H5_ITER_CONT; /* Callback return value */ + + FUNC_ENTER_STATIC_NOERR + + HDassert(num_chunks); + + (*num_chunks)++; + + FUNC_LEAVE_NOAPI(ret_value) +} /* H5D__get_num_chunks_cb() */ + + +/*------------------------------------------------------------------------- + * Function: H5D__get_num_chunks + * + * Purpose: Gets the number of written chunks in a dataset. + * + * Note: Currently, this function only gets the number of all written + * chunks, regardless the dataspace. + * + * Return: Success: Non-negative + * Failure: Negative + * + * Programmer: Binh-Minh Ribler + * June 2019 (HDFFV-10677) + * + *------------------------------------------------------------------------- + */ +herr_t +H5D__get_num_chunks(const H5D_t *dset, const H5S_t H5_ATTR_UNUSED *space, hsize_t *nchunks) +{ + H5D_chk_idx_info_t idx_info; /* Chunked index info */ + hsize_t num_chunks = 0; /* Number of written chunks */ + H5D_rdcc_ent_t *ent; /* Cache entry */ + const H5D_rdcc_t *rdcc = NULL; /* Raw data chunk cache */ + const H5O_layout_t *layout; /* Dataset layout */ + herr_t ret_value = SUCCEED; /* Return value */ + + FUNC_ENTER_PACKAGE_TAG(dset->oloc.addr) + + HDassert(dset); + HDassert(dset->shared); + HDassert(space); + HDassert(nchunks); + + layout = &(dset->shared->layout); /* Dataset layout */ + rdcc = &(dset->shared->cache.chunk); /* raw data chunk cache */ + HDassert(rdcc); + + /* Search for cached chunks that haven't been written out */ + for(ent = rdcc->head; ent; ent = ent->next) + /* Flush the chunk out to disk, to make certain the size is correct later */ + if(H5D__chunk_flush_entry(dset, ent, FALSE) < 0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "cannot flush indexed storage buffer") + + /* Compose chunked index info struct */ + idx_info.f = dset->oloc.file; + idx_info.pline = &dset->shared->dcpl_cache.pline; + idx_info.layout = &dset->shared->layout.u.chunk; + idx_info.storage = &dset->shared->layout.storage.u.chunk; + + /* If the dataset is not written, number of chunks will be 0 */ + if(!H5F_addr_defined(idx_info.storage->idx_addr)) { + *nchunks = 0; + } + else { + /* Iterate over the allocated chunks */ + if((dset->shared->layout.storage.u.chunk.ops->iterate)(&idx_info, H5D__get_num_chunks_cb, &num_chunks) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "unable to retrieve allocated chunk information from index") + *nchunks = num_chunks; + } + +done: + FUNC_LEAVE_NOAPI(ret_value) +} /* end H5D__get_num_chunks() */ + + +/*------------------------------------------------------------------------- + * Function: H5D__get_chunk_info_cb + * + * Purpose: Get the chunk info of the queried chunk, given by its index. + * + * Return: Success: H5_ITER_CONT or H5_ITER_STOP + * H5_ITER_STOP indicates the queried chunk is found + * Failure: Negative (H5_ITER_ERROR) + * + * Programmer: Binh-Minh Ribler + * June 2019 (HDFFV-10677) + * + *------------------------------------------------------------------------- + */ +static int +H5D__get_chunk_info_cb(const H5D_chunk_rec_t *chunk_rec, void *_udata) +{ + H5D_chunk_info_iter_ud_t *chunk_info = (H5D_chunk_info_iter_ud_t *)_udata; + hsize_t ii = 0; /* Dimension index */ + int ret_value = H5_ITER_CONT; /* Callback return value */ + + FUNC_ENTER_STATIC_NOERR + + /* Check args */ + HDassert(chunk_rec); + HDassert(chunk_info); + + /* If this is the queried chunk, retrieve its info and stop iterating */ + if (chunk_info->curr_idx == chunk_info->chunk_idx) { + chunk_info->filter_mask = chunk_rec->filter_mask; + chunk_info->chunk_addr = chunk_rec->chunk_addr; + chunk_info->nbytes = chunk_rec->nbytes; + for (ii = 0; ii < chunk_info->ndims; ii++) + chunk_info->scaled[ii] = chunk_rec->scaled[ii]; + chunk_info->found = TRUE; + + /* Stop iterating */ + ret_value = H5_ITER_STOP; + } + /* Go to the next chunk */ + else + chunk_info->curr_idx++; + + FUNC_LEAVE_NOAPI(ret_value) +} /* H5D__get_chunk_info_cb() */ + + +/*------------------------------------------------------------------------- + * Function: H5D__get_chunk_info + * + * Purpose: Iterate over the chunks in the dataset to get the info + * of the desired chunk. + * + * Note: Currently, this function only gets the number of all written + * chunks, regardless the dataspace. + * + * Return: Success: SUCCEED + * Failure: FAIL + * + * Programmer: Binh-Minh Ribler + * June 2019 (HDFFV-10677) + * + *------------------------------------------------------------------------- + */ +herr_t +H5D__get_chunk_info(const H5D_t *dset, const H5S_t H5_ATTR_UNUSED *space, hsize_t chk_index, hsize_t *offset, unsigned *filter_mask, haddr_t *addr, hsize_t *size) +{ + H5D_chk_idx_info_t idx_info; /* Chunked index info */ + H5D_chunk_info_iter_ud_t udata; /* User data for callback */ + const H5D_rdcc_t *rdcc = NULL; /* Raw data chunk cache */ + H5D_rdcc_ent_t *ent; /* Cache entry index */ + hsize_t ii = 0; /* Dimension index */ + hsize_t nchunks = 0; /* Number of chunks in this dset */ + hsize_t scaled[H5S_MAX_RANK]; + herr_t ret_value = SUCCEED;/* Return value */ + + FUNC_ENTER_PACKAGE_TAG(dset->oloc.addr) + + HDassert(dset); + HDassert(dset->shared); + HDassert(space); + + /* Get the raw data chunk cache */ + rdcc = &(dset->shared->cache.chunk); + HDassert(rdcc); + + /* Search for cached chunks that haven't been written out */ + for(ent = rdcc->head; ent; ent = ent->next) + /* Flush the chunk out to disk, to make certain the size is correct later */ + if(H5D__chunk_flush_entry(dset, ent, FALSE) < 0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "cannot flush indexed storage buffer") + + /* Compose chunked index info struct */ + idx_info.f = dset->oloc.file; + idx_info.pline = &dset->shared->dcpl_cache.pline; + idx_info.layout = &dset->shared->layout.u.chunk; + idx_info.storage = &dset->shared->layout.storage.u.chunk; + + /* Set addr & size for when dset is not written or queried chunk is not found */ + if (addr) + *addr = HADDR_UNDEF; + if (size) + *size = 0; + + /* If the chunk is written, get its info, otherwise, return without error */ + if(H5F_addr_defined(idx_info.storage->idx_addr)) { + /* Initialize before iteration */ + udata.chunk_idx = chk_index; + udata.curr_idx = 0; + udata.ndims = dset->shared->ndims; + udata.nbytes = 0; + udata.filter_mask = 0; + udata.chunk_addr = HADDR_UNDEF; + udata.found = FALSE; + + /* Iterate over the allocated chunks */ + if((dset->shared->layout.storage.u.chunk.ops->iterate)(&idx_info, H5D__get_chunk_info_cb, &udata) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "unable to retrieve allocated chunk information from index") + + /* Obtain requested info if the chunk is found */ + if(udata.found) { + if(filter_mask) + *filter_mask = udata.filter_mask; + if(addr) + *addr = udata.chunk_addr; + if(size) + *size = udata.nbytes; + if(offset) + for(ii = 0; ii < udata.ndims; ii++) + offset[ii] = udata.scaled[ii] * dset->shared->layout.u.chunk.dim[ii]; + } + } /* end if H5F_addr_defined */ + +done: + FUNC_LEAVE_NOAPI(ret_value) +} /* end H5D__get_chunk_info() */ + + +/*------------------------------------------------------------------------- + * Function: H5D__get_chunk_info_by_coord_cb + * + * Purpose: Get the chunk info of the desired chunk, given its offset + * coordinates. + * + * Return: Success: H5_ITER_CONT or H5_ITER_STOP + * Failure: Negative (H5_ITER_ERROR) + * + * Programmer: Binh-Minh Ribler + * June 2019 (HDFFV-10677) + * + *------------------------------------------------------------------------- + */ +static int +H5D__get_chunk_info_by_coord_cb(const H5D_chunk_rec_t *chunk_rec, void *_udata) +{ + hsize_t ii; + H5D_chunk_info_iter_ud_t *chunk_info = (H5D_chunk_info_iter_ud_t *)_udata; + hbool_t different = FALSE; /* TRUE when a scaled value pair mismatch */ + int ret_value = H5_ITER_CONT; /* Callback return value */ + + FUNC_ENTER_STATIC_NOERR + + /* Check args */ + HDassert(chunk_rec); + HDassert(chunk_info); + + /* Going through the scaled, stop when a mismatch is found */ + for (ii = 0; ii < chunk_info->ndims && !different; ii++) + if (chunk_info->scaled[ii] != chunk_rec->scaled[ii]) + different = TRUE; + + /* Same scaled coords means the chunk is found, copy the chunk info */ + if (!different) { + chunk_info->nbytes = chunk_rec->nbytes; + chunk_info->filter_mask = chunk_rec->filter_mask; + chunk_info->chunk_addr = chunk_rec->chunk_addr; + chunk_info->found = TRUE; + + /* Stop iterating */ + ret_value = H5_ITER_STOP; + } + + FUNC_LEAVE_NOAPI(ret_value) +} /* H5D__get_chunk_info_by_coord_cb() */ + + +/*------------------------------------------------------------------------- + * Function: H5D__get_chunk_info_by_coord + * + * Purpose: Iterate over the chunks in the dataset to get the info + * of the desired chunk, given by its offset coordinates. + * + * Return: Success: Non-negative + * Failure: Negative + * + * Programmer: Binh-Minh Ribler + * June 2019 (HDFFV-10677) + * + *------------------------------------------------------------------------- + */ +herr_t +H5D__get_chunk_info_by_coord(const H5D_t *dset, const hsize_t *offset, unsigned* filter_mask, haddr_t *addr, hsize_t *size) +{ + const H5O_layout_t *layout = NULL; /* Dataset layout */ + const H5D_rdcc_t *rdcc = NULL; /* Raw data chunk cache */ + H5D_rdcc_ent_t *ent; /* Cache entry index */ + H5D_chk_idx_info_t idx_info; /* Chunked index info */ + H5D_chunk_info_iter_ud_t udata; /* User data for callback */ + H5D_chunk_ud_t udata2; + hsize_t scaled[H5S_MAX_RANK]; + herr_t ret_value = SUCCEED; /* Return value */ + + FUNC_ENTER_PACKAGE_TAG(dset->oloc.addr) + + /* Check args */ + HDassert(dset); + HDassert(dset->shared); + HDassert(offset); + + /* Get dataset layout and raw data chunk cache */ + layout = &(dset->shared->layout); + rdcc = &(dset->shared->cache.chunk); + HDassert(layout); + HDassert(rdcc); + HDassert(H5D_CHUNKED == layout->type); + +/* Is this expensive? */ + /* Search for cached chunks that haven't been written out */ + for(ent = rdcc->head; ent; ent = ent->next) + /* Flush the chunk out to disk, to make certain the size is correct later */ + if(H5D__chunk_flush_entry(dset, ent, FALSE) < 0) + HGOTO_ERROR(H5E_IO, H5E_WRITEERROR, FAIL, "cannot flush indexed storage buffer") + + /* Set addr & size for when dset is not written or queried chunk is not found */ + if (addr) + *addr = HADDR_UNDEF; + if (size) + *size = 0; + + /* Compose chunked index info struct */ + idx_info.f = dset->oloc.file; + idx_info.pline = &dset->shared->dcpl_cache.pline; + idx_info.layout = &dset->shared->layout.u.chunk; + idx_info.storage = &dset->shared->layout.storage.u.chunk; + + /* If the dataset is not written, return without errors */ + if(H5F_addr_defined(idx_info.storage->idx_addr)) { + /* Calculate the scaled of this chunk */ + H5VM_chunk_scaled(dset->shared->ndims, offset, layout->u.chunk.dim, udata.scaled); + udata.scaled[dset->shared->ndims] = 0; + + /* Initialize before iteration */ + udata.ndims = dset->shared->ndims; + udata.nbytes = 0; + udata.filter_mask = 0; + udata.chunk_addr = HADDR_UNDEF; + udata.found = FALSE; + + /* Iterate over the allocated chunks to find the requested chunk */ + if((dset->shared->layout.storage.u.chunk.ops->iterate)(&idx_info, H5D__get_chunk_info_by_coord_cb, &udata) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTGET, FAIL, "unable to retrieve information of the chunk by its scaled coordinates") + + /* Obtain requested info if the chunk is found */ + if (udata.found) { + if(filter_mask) + *filter_mask = udata.filter_mask; + if(addr) + *addr = udata.chunk_addr; + if(size) + *size = udata.nbytes; + } + } /* end if H5F_addr_defined */ + +done: + FUNC_LEAVE_NOAPI_TAG(ret_value) +} /* end H5D__get_chunk_info_by_coord() */ + |