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authorDana Robinson <derobins@hdfgroup.org>2018-05-31 23:14:24 (GMT)
committerDana Robinson <derobins@hdfgroup.org>2018-05-31 23:14:24 (GMT)
commitdec2f588acad45eaa02061d7d28774e5c6915f70 (patch)
tree5029cc9e0acf30aef5083e692574899f768c8d13 /test
parent1c7b0bc85713d4eafeb7c8157d6526b42826f0ca (diff)
parent1da9c5545c013ebc540ba3044810889d4acfa5be (diff)
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Merge pull request #1043 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:h5do_direct_chunk_hl_to_src to develop
* commit '1da9c5545c013ebc540ba3044810889d4acfa5be': Restored some unused #defines to the deprecated section of H5Dpublic.h. Added deprecated symbol wrappers for the H5DOwrite/read_chunk wrappers. Updated commenting in the H5DO compat test. Stripped out most of the duplicated functionality in the H5DO compat test. * Added H5DO compatibility functions. * Changed the offset copy to use an array on the stack. * Yanked some unused #defines. * Fixed the error tests * Moved common functionality into helper functions Normalize with trunk prior to update merge Fixed a warning. Finished move of H5DOread/write_chunk calls to H5D. First stage of moving H5DOread/write_chunk() to src/ and making them H5D calls. * Moved H5DOread/write_chunk() to H5Dio.c and renamed to H5D*. * Moved the hl/test/test_dset_opt test to test/ and renamed to direct_chunk. * Moved the hl/test/dectris_hl_perf test to tools/test/perform and renamed to direct_write_perf. * Updated autotools and CMake files.
Diffstat (limited to 'test')
-rw-r--r--test/CMakeLists.txt1
-rw-r--r--test/CMakeTests.cmake1
-rw-r--r--test/Makefile.am13
-rw-r--r--test/direct_chunk.c2167
-rw-r--r--test/testfiles/err_compat_12
-rw-r--r--test/testfiles/error_test_14
6 files changed, 2179 insertions, 9 deletions
diff --git a/test/CMakeLists.txt b/test/CMakeLists.txt
index 1ab7b5a..a2ade92 100644
--- a/test/CMakeLists.txt
+++ b/test/CMakeLists.txt
@@ -200,6 +200,7 @@ set (H5_TESTS
cmpd_dset
filter_fail
extend
+ direct_chunk
external
efc
objcopy
diff --git a/test/CMakeTests.cmake b/test/CMakeTests.cmake
index 2de0f0d..39d9d0d 100644
--- a/test/CMakeTests.cmake
+++ b/test/CMakeTests.cmake
@@ -532,6 +532,7 @@ set (test_CLEANFILES
vds_swmr.h5
vds_swmr_src_*.h5
tmp/vds_src_2.h5
+ direct_chunk.h5
)
# Remove any output file left over from previous test run
diff --git a/test/Makefile.am b/test/Makefile.am
index bb80fed..dcc002c 100644
--- a/test/Makefile.am
+++ b/test/Makefile.am
@@ -55,11 +55,12 @@ TEST_PROG= testhdf5 \
cache cache_api cache_image cache_tagging lheap ohdr stab gheap \
evict_on_close farray earray btree2 fheap \
pool accum hyperslab istore bittests dt_arith page_buffer \
- dtypes dsets cmpd_dset filter_fail extend external efc objcopy links unlink \
- twriteorder big mtime fillval mount flush1 flush2 app_ref enum \
- set_extent ttsafe enc_dec_plist enc_dec_plist_cross_platform\
- getname vfd ntypes dangle dtransform reserved cross_read \
- freespace mf vds file_image unregister cache_logging cork swmr
+ dtypes dsets cmpd_dset filter_fail extend direct_chunk external efc \
+ objcopy links unlink twriteorder big mtime fillval mount \
+ flush1 flush2 app_ref enum set_extent ttsafe enc_dec_plist \
+ enc_dec_plist_cross_platform getname vfd ntypes dangle dtransform \
+ reserved cross_read freespace mf vds file_image unregister \
+ cache_logging cork swmr
# List programs to be built when testing here.
# error_test and err_compat are built at the same time as the other tests, but executed by testerror.sh.
@@ -190,7 +191,7 @@ CHECK_CLEANFILES+=accum.h5 cmpd_dset.h5 compact_dataset.h5 dataset.h5 dset_offse
flushrefresh_VERIFICATION_DONE atomic_data accum_swmr_big.h5 ohdr_swmr.h5 \
test_swmr*.h5 cache_logging.h5 cache_logging.out vds_swmr.h5 vds_swmr_src_*.h5 \
swmr[0-2].h5 swmr_writer.out swmr_writer.log.* swmr_reader.out.* swmr_reader.log.* \
- tbogus.h5.copy cache_image_test.h5
+ tbogus.h5.copy cache_image_test.h5 direct_chunk.h5
# Sources for testhdf5 executable
testhdf5_SOURCES=testhdf5.c tarray.c tattr.c tchecksum.c tconfig.c tfile.c \
diff --git a/test/direct_chunk.c b/test/direct_chunk.c
new file mode 100644
index 0000000..2ef38ea
--- /dev/null
+++ b/test/direct_chunk.c
@@ -0,0 +1,2167 @@
+/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
+* Copyright by The HDF Group. *
+* Copyright by the Board of Trustees of the University of Illinois. *
+* All rights reserved. *
+* *
+* This file is part of HDF5. The full HDF5 copyright notice, including *
+* terms governing use, modification, and redistribution, is contained in *
+ * the COPYING file, which can be found at the root of the source code *
+ * distribution tree, or in https://support.hdfgroup.org/ftp/HDF5/releases. *
+ * If you do not have access to either file, you may request a copy from *
+ * help@hdfgroup.org. *
+* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
+
+#include "h5test.h"
+
+#if defined(H5_HAVE_ZLIB_H) && !defined(H5_ZLIB_HEADER)
+# define H5_ZLIB_HEADER "zlib.h"
+#endif
+#if defined(H5_ZLIB_HEADER)
+# include H5_ZLIB_HEADER /* "zlib.h" */
+#endif
+
+#define FILE_NAME "direct_chunk.h5"
+
+/* Datasets for Direct Write tests */
+#define DATASETNAME1 "direct_write"
+#define DATASETNAME2 "skip_one_filter"
+#define DATASETNAME3 "skip_two_filters"
+#define DATASETNAME4 "data_conv"
+#define DATASETNAME5 "contiguous_dset"
+#define DATASETNAME6 "invalid_argue"
+#define DATASETNAME7 "overwrite_chunk"
+/* Datasets for Direct Read tests */
+#define DATASETNAME8 "disabled_chunk_cache"
+#define DATASETNAME9 "flush_chunk_cache"
+#define DATASETNAME10 "read_w_valid_cache"
+#define DATASETNAME11 "unallocated_chunk"
+#define DATASETNAME12 "unfiltered_data"
+
+#define RANK 2
+#define NX 16
+#define NY 16
+#define CHUNK_NX 4
+#define CHUNK_NY 4
+
+#define DEFLATE_SIZE_ADJUST(s) (HDceil(((double)(s))*H5_DOUBLE(1.001))+H5_DOUBLE(12.0))
+
+/* Temporary filter IDs used for testing */
+#define H5Z_FILTER_BOGUS1 305
+#define H5Z_FILTER_BOGUS2 306
+#define ADD_ON 7
+#define FACTOR 3
+
+/* Constants for the overwrite test */
+#define OVERWRITE_NDIMS 3
+#define OVERWRITE_CHUNK_NX 3
+#define OVERWRITE_CHUNK_2NX 6
+#define OVERWRITE_CHUNK_NY 2
+#define OVERWRITE_VALUE 42
+
+/* Defines used in test_single_chunk_latest() */
+#define FILE "single_latest.h5"
+#define DATASET "dataset"
+#define DIM0 4
+#define DIM1 32
+#define CHUNK0 DIM0
+#define CHUNK1 DIM1
+
+/* Local prototypes for filter functions */
+static size_t filter_bogus1(unsigned int flags, size_t cd_nelmts,
+ const unsigned int *cd_values, size_t nbytes, size_t *buf_size, void **buf);
+static size_t filter_bogus2(unsigned int flags, size_t cd_nelmts,
+ const unsigned int *cd_values, size_t nbytes, size_t *buf_size, void **buf);
+
+/* This message derives from H5Z */
+const H5Z_class2_t H5Z_BOGUS1[1] = {{
+ H5Z_CLASS_T_VERS, /* H5Z_class_t version */
+ H5Z_FILTER_BOGUS1, /* Filter id number */
+ 1, 1, /* Encoding and decoding enabled */
+ "bogus1", /* Filter name for debugging */
+ NULL, /* The "can apply" callback */
+ NULL, /* The "set local" callback */
+ filter_bogus1, /* The actual filter function */
+}};
+
+const H5Z_class2_t H5Z_BOGUS2[1] = {{
+ H5Z_CLASS_T_VERS, /* H5Z_class_t version */
+ H5Z_FILTER_BOGUS2, /* Filter id number */
+ 1, 1, /* Encoding and decoding enabled */
+ "bogus2", /* Filter name for debugging */
+ NULL, /* The "can apply" callback */
+ NULL, /* The "set local" callback */
+ filter_bogus2, /* The actual filter function */
+}};
+
+/*-------------------------------------------------------------------------
+ * Function: test_direct_chunk_write
+ *
+ * Purpose: Test the basic functionality of H5Dwrite_chunk
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ * Programmer: Raymond Lu
+ * 30 November 2012
+ *
+ *-------------------------------------------------------------------------
+ */
+#ifdef H5_HAVE_FILTER_DEFLATE
+static int
+test_direct_chunk_write (hid_t file)
+{
+ hid_t dataspace = -1, dataset = -1;
+ hid_t mem_space = -1;
+ hid_t cparms = -1, dxpl = -1;
+ hsize_t dims[2] = {NX, NY};
+ hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED};
+ hsize_t chunk_dims[2] ={CHUNK_NX, CHUNK_NY};
+ herr_t status;
+ int ret;
+ int data[NX][NY];
+ int i, j, n;
+
+ unsigned filter_mask = 0;
+ int direct_buf[CHUNK_NX][CHUNK_NY];
+ int check_chunk[CHUNK_NX][CHUNK_NY];
+ hsize_t offset[2] = {0, 0};
+ size_t buf_size = CHUNK_NX*CHUNK_NY*sizeof(int);
+
+ const Bytef *z_src = (const Bytef*)(direct_buf);
+ Bytef *z_dst = NULL; /*destination buffer */
+ uLongf z_dst_nbytes = (uLongf)DEFLATE_SIZE_ADJUST(buf_size);
+ uLong z_src_nbytes = (uLong)buf_size;
+ int aggression = 9; /* Compression aggression setting */
+ void *outbuf = NULL; /* Pointer to new buffer */
+
+ hsize_t start[2]; /* Start of hyperslab */
+ hsize_t stride[2]; /* Stride of hyperslab */
+ hsize_t count[2]; /* Block count */
+ hsize_t block[2]; /* Block sizes */
+
+ TESTING("basic functionality of H5Dwrite_chunk");
+
+ /*
+ * Create the data space with unlimited dimensions.
+ */
+ if((dataspace = H5Screate_simple(RANK, dims, maxdims)) < 0)
+ goto error;
+
+ if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
+ goto error;
+
+ /*
+ * Modify dataset creation properties, i.e. enable chunking and compression
+ */
+ if((cparms = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ goto error;
+
+ if((status = H5Pset_chunk( cparms, RANK, chunk_dims)) < 0)
+ goto error;
+
+ if((status = H5Pset_deflate( cparms, (unsigned) aggression)) < 0)
+ goto error;
+
+ /*
+ * Create a new dataset within the file using cparms
+ * creation properties.
+ */
+ if((dataset = H5Dcreate2(file, DATASETNAME1, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
+ cparms, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /* Initialize the dataset */
+ for(i = n = 0; i < NX; i++)
+ for(j = 0; j < NY; j++)
+ data[i][j] = n++;
+
+ if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
+ goto error;
+
+ /*
+ * Write the data for the dataset. It should stay in the chunk cache.
+ * It will be evicted from the cache by the H5Dwrite_chunk calls.
+ */
+ if((status = H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL,
+ dxpl, data)) < 0)
+ goto error;
+
+ /* Initialize data for one chunk */
+ for(i = n = 0; i < CHUNK_NX; i++)
+ for(j = 0; j < CHUNK_NY; j++)
+ direct_buf[i][j] = n++;
+
+ /* Allocate output (compressed) buffer */
+ outbuf = HDmalloc(z_dst_nbytes);
+ z_dst = (Bytef *)outbuf;
+
+ /* Perform compression from the source to the destination buffer */
+ ret = compress2(z_dst, &z_dst_nbytes, z_src, z_src_nbytes, aggression);
+
+ /* Check for various zlib errors */
+ if(Z_BUF_ERROR == ret) {
+ HDfprintf(stderr, "overflow");
+ goto error;
+ } else if(Z_MEM_ERROR == ret) {
+ HDfprintf(stderr, "deflate memory error");
+ goto error;
+ } else if(Z_OK != ret) {
+ HDfprintf(stderr, "other deflate error");
+ goto error;
+ }
+
+ /* Write the compressed chunk data repeatedly to cover all the chunks in the
+ * dataset, using the direct writing function. */
+ for(i=0; i<NX/CHUNK_NX; i++) {
+ for(j=0; j<NY/CHUNK_NY; j++) {
+ status = H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, z_dst_nbytes, outbuf);
+ offset[1] += CHUNK_NY;
+ }
+ offset[0] += CHUNK_NX;
+ offset[1] = 0;
+ }
+
+ if(outbuf)
+ HDfree(outbuf);
+
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ goto error;
+
+ if(H5Dclose(dataset) < 0)
+ goto error;
+
+ if((dataset = H5Dopen2(file, DATASETNAME1, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /*
+ * Select hyperslab for one chunk in the file
+ */
+ start[0] = CHUNK_NX; start[1] = CHUNK_NY;
+ stride[0] = 1; stride[1] = 1;
+ count[0] = 1; count[1] = 1;
+ block[0] = CHUNK_NX; block[1] = CHUNK_NY;
+ if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
+ goto error;
+
+ /* Read the chunk back */
+ if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
+ goto error;
+
+ /* Check that the values read are the same as the values written */
+ for(i = 0; i < CHUNK_NX; i++) {
+ for(j = 0; j < CHUNK_NY; j++) {
+ if(direct_buf[i][j] != check_chunk[i][j]) {
+ HDprintf(" 1. Read different values than written.");
+ HDprintf(" At index %d,%d\n", i, j);
+ HDprintf(" direct_buf=%d, check_chunk=%d\n", direct_buf[i][j], check_chunk[i][j]);
+ goto error;
+ }
+ }
+ }
+
+ /* Reinitialize different data for one chunk */
+ for(i = 0; i < CHUNK_NX; i++)
+ for(j = 0; j < CHUNK_NY; j++)
+ direct_buf[i][j] = i + j;
+
+ /* Allocate output (compressed) buffer */
+ outbuf = HDmalloc(z_dst_nbytes);
+ z_dst = (Bytef *)outbuf;
+
+ /* Perform compression from the source to the destination buffer */
+ ret = compress2(z_dst, &z_dst_nbytes, z_src, z_src_nbytes, aggression);
+
+ /* Check for various zlib errors */
+ if(Z_BUF_ERROR == ret) {
+ HDfprintf(stderr, "overflow");
+ goto error;
+ } else if(Z_MEM_ERROR == ret) {
+ HDfprintf(stderr, "deflate memory error");
+ goto error;
+ } else if(Z_OK != ret) {
+ HDfprintf(stderr, "other deflate error");
+ goto error;
+ }
+
+ /* Rewrite the compressed chunk data repeatedly to cover all the chunks in the
+ * dataset, using the direct writing function. */
+ offset[0] = offset[1] = 0;
+ for(i=0; i<NX/CHUNK_NX; i++) {
+ for(j=0; j<NY/CHUNK_NY; j++) {
+ status = H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, z_dst_nbytes, outbuf);
+ offset[1] += CHUNK_NY;
+ }
+ offset[0] += CHUNK_NX;
+ offset[1] = 0;
+ }
+
+ if(outbuf)
+ HDfree(outbuf);
+
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ goto error;
+
+ if(H5Dclose(dataset) < 0)
+ goto error;
+
+ if((dataset = H5Dopen2(file, DATASETNAME1, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /* Read the chunk back */
+ if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
+ goto error;
+
+ /* Check that the values read are the same as the values written */
+ for(i = 0; i < CHUNK_NX; i++) {
+ for(j = 0; j < CHUNK_NY; j++) {
+ if(direct_buf[i][j] != check_chunk[i][j]) {
+ HDprintf(" 2. Read different values than written.");
+ HDprintf(" At index %d,%d\n", i, j);
+ HDprintf(" direct_buf=%d, check_chunk=%d\n", direct_buf[i][j], check_chunk[i][j]);
+ goto error;
+ }
+ }
+ }
+
+ /*
+ * Close/release resources.
+ */
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ } H5E_END_TRY;
+
+ if(outbuf)
+ HDfree(outbuf);
+
+ H5_FAILED();
+ return 1;
+} /* test_direct_chunk_write() */
+#endif /* H5_HAVE_FILTER_DEFLATE */
+
+/*-------------------------------------------------------------------------
+ * Function: test_direct_chunk_overwrite_data
+ *
+ * Purpose: Test overwriting a chunk with new data.
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ * Programmer: Dana Robinson
+ * Spring 2017
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+test_direct_chunk_overwrite_data(hid_t fid)
+{
+ size_t buf_size = OVERWRITE_CHUNK_NX * OVERWRITE_CHUNK_NY * sizeof(int16_t);
+ int16_t data_buf[OVERWRITE_CHUNK_NY][OVERWRITE_CHUNK_NX];
+ int16_t overwrite_buf[OVERWRITE_CHUNK_NY][OVERWRITE_CHUNK_NX];
+ uint32_t filter_mask = 0;
+ hid_t tid = H5T_NATIVE_UINT16;
+ hid_t dcpl_id = -1;
+ hid_t sid = -1;
+ hid_t did = -1;
+ uint16_t fill_value = 0;
+ hsize_t dset_dims[] = {1, OVERWRITE_CHUNK_NY, OVERWRITE_CHUNK_2NX};
+ hsize_t dset_max_dims[] = {H5S_UNLIMITED, OVERWRITE_CHUNK_NY, OVERWRITE_CHUNK_2NX};
+ hsize_t chunk_dims[] = {1, OVERWRITE_CHUNK_NY, OVERWRITE_CHUNK_NX};
+ hsize_t offset[] = {0, 0, 0};
+ hsize_t i, j;
+ int16_t n;
+ int16_t read_buf[OVERWRITE_CHUNK_NY][OVERWRITE_CHUNK_2NX];
+
+ TESTING("overwriting existing data with H5Dwrite_chunk");
+
+ /* Create the dataset's data space */
+ if ((sid = H5Screate_simple(OVERWRITE_NDIMS, dset_dims, dset_max_dims)) < 0)
+ FAIL_STACK_ERROR
+
+ /* Set chunk size and filll value */
+ if ((dcpl_id = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ FAIL_STACK_ERROR
+ if (H5Pset_fill_value(dcpl_id, tid, &fill_value) < 0)
+ FAIL_STACK_ERROR
+ if (H5Pset_chunk(dcpl_id, OVERWRITE_NDIMS, chunk_dims) < 0)
+ FAIL_STACK_ERROR
+
+ /* Create dataset */
+ if ((did = H5Dcreate2(fid, DATASETNAME7, tid, sid, H5P_DEFAULT, dcpl_id, H5P_DEFAULT)) < 0)
+ FAIL_STACK_ERROR
+
+ /* Initialize data buffers */
+ n = 0;
+ for (i = 0; i < OVERWRITE_CHUNK_NY; i++) {
+ for (j = 0; j < OVERWRITE_CHUNK_NX; j++) {
+ data_buf[i][j] = n++;
+ overwrite_buf[i][j] = OVERWRITE_VALUE;
+ }
+ }
+
+ /* Write chunk data using the direct write function. */
+ if (H5Dwrite_chunk(did, H5P_DEFAULT, filter_mask, offset, buf_size, data_buf) < 0)
+ FAIL_STACK_ERROR
+
+ /* Write second chunk. */
+ offset[2] = OVERWRITE_CHUNK_NX;
+ if (H5Dwrite_chunk(did, H5P_DEFAULT, filter_mask, offset, buf_size, data_buf) < 0)
+ FAIL_STACK_ERROR
+
+ /* Overwrite first chunk. */
+ offset[2] = 0;
+ if (H5Dwrite_chunk(did, H5P_DEFAULT, filter_mask, offset, buf_size, overwrite_buf) < 0)
+ FAIL_STACK_ERROR
+
+ /* Read the data back out */
+ if (H5Dread(did, tid, H5S_ALL, H5S_ALL, H5P_DEFAULT, read_buf) < 0)
+ FAIL_STACK_ERROR
+
+ /* Ensure that the data are correct in chunk 1 */
+ for (i = 0; i < OVERWRITE_CHUNK_NY; i++)
+ for (j = 0; j < OVERWRITE_CHUNK_NX; j++) {
+ if (read_buf[i][j] != OVERWRITE_VALUE)
+ TEST_ERROR
+ }
+
+ if (H5Pclose(dcpl_id) < 0)
+ FAIL_STACK_ERROR
+ if (H5Sclose(sid) < 0)
+ FAIL_STACK_ERROR
+ if (H5Dclose(did) < 0)
+ FAIL_STACK_ERROR
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Pclose(dcpl_id);
+ H5Sclose(sid);
+ H5Dclose(did);
+ } H5E_END_TRY;
+
+ H5_FAILED();
+ return 1;
+} /* end test_direct_chunk_overwrite_data() */
+
+/*-------------------------------------------------------------------------
+ * Function: test_skip_compress_write1
+ *
+ * Purpose: Test skipping compression filter when it is the only filter
+ * for the dataset
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ * Programmer: Raymond Lu
+ * 30 November 2012
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+test_skip_compress_write1(hid_t file)
+{
+ hid_t dataspace = -1, dataset = -1;
+ hid_t mem_space = -1;
+ hid_t cparms = -1, dxpl = -1;
+ hsize_t dims[2] = {NX, NY};
+ hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED};
+ hsize_t chunk_dims[2] ={CHUNK_NX, CHUNK_NY};
+ herr_t status;
+ int i, j, n;
+
+ unsigned filter_mask = 0;
+ int direct_buf[CHUNK_NX][CHUNK_NY];
+ int check_chunk[CHUNK_NX][CHUNK_NY];
+ hsize_t offset[2] = {0, 0};
+ size_t buf_size = CHUNK_NX*CHUNK_NY*sizeof(int);
+ int aggression = 9; /* Compression aggression setting */
+
+ unsigned read_filter_mask = 0; /* filter mask after direct read */
+ int read_direct_buf[CHUNK_NX][CHUNK_NY];
+ hsize_t read_buf_size = 0; /* buf size */
+
+ hsize_t start[2]; /* Start of hyperslab */
+ hsize_t stride[2]; /* Stride of hyperslab */
+ hsize_t count[2]; /* Block count */
+ hsize_t block[2]; /* Block sizes */
+
+ TESTING("skipping compression filter for H5Dwrite_chunk/H5Dread_chunk");
+
+ /*
+ * Create the data space with unlimited dimensions.
+ */
+ if((dataspace = H5Screate_simple(RANK, dims, maxdims)) < 0)
+ goto error;
+
+ if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
+ goto error;
+
+ /*
+ * Modify dataset creation properties, i.e. enable chunking and compression
+ */
+ if((cparms = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ goto error;
+
+ if((status = H5Pset_chunk( cparms, RANK, chunk_dims)) < 0)
+ goto error;
+
+ if((status = H5Pset_deflate( cparms, (unsigned ) aggression)) < 0)
+ goto error;
+
+ /*
+ * Create a new dataset within the file using cparms
+ * creation properties.
+ */
+ if((dataset = H5Dcreate2(file, DATASETNAME2, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
+ cparms, H5P_DEFAULT)) < 0)
+ goto error;
+
+ if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
+ goto error;
+
+ /* Initialize data for one chunk */
+ for(i = n = 0; i < CHUNK_NX; i++)
+ for(j = 0; j < CHUNK_NY; j++) {
+ direct_buf[i][j] = n++;
+ }
+
+ /* write the uncompressed chunk data repeatedly to dataset, using the direct writing function.
+ * Indicate skipping the compression filter. */
+ offset[0] = CHUNK_NX;
+ offset[1] = CHUNK_NY;
+
+ filter_mask = 0x00000001;
+
+ if((status = H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, direct_buf)) < 0)
+ goto error;
+
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ goto error;
+
+ if(H5Dclose(dataset) < 0)
+ goto error;
+
+ if((dataset = H5Dopen2(file, DATASETNAME2, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /*
+ * Select hyperslab for the chunk just written in the file
+ */
+ start[0] = CHUNK_NX; start[1] = CHUNK_NY;
+ stride[0] = 1; stride[1] = 1;
+ count[0] = 1; count[1] = 1;
+ block[0] = CHUNK_NX; block[1] = CHUNK_NY;
+ if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
+ goto error;
+
+ /* Read the chunk back */
+ if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
+ goto error;
+
+ /* Check that the values read are the same as the values written */
+ for(i = 0; i < CHUNK_NX; i++) {
+ for(j = 0; j < CHUNK_NY; j++) {
+ if(direct_buf[i][j] != check_chunk[i][j]) {
+ HDprintf(" 1. Read different values than written.");
+ HDprintf(" At index %d,%d\n", i, j);
+ HDprintf(" direct_buf=%d, check_chunk=%d\n", direct_buf[i][j], check_chunk[i][j]);
+ goto error;
+ }
+ }
+ }
+
+ /* Query chunk storage size */
+ if((status = H5Dget_chunk_storage_size(dataset, offset, &read_buf_size)) < 0)
+ goto error;
+ if(read_buf_size != buf_size)
+ goto error;
+
+ /* Read the raw chunk back */
+ HDmemset(&read_direct_buf, 0, sizeof(read_direct_buf));
+ if((status = H5Dread_chunk(dataset, H5P_DEFAULT, offset, &read_filter_mask, read_direct_buf)) < 0)
+ goto error;
+ if(read_filter_mask != filter_mask)
+ goto error;
+
+ /* Check that the direct chunk read is the same as the chunk written */
+ for(i = 0; i < CHUNK_NX; i++) {
+ for(j = 0; j < CHUNK_NY; j++) {
+ if(direct_buf[i][j] != read_direct_buf[i][j]) {
+ HDprintf(" 1. Read different values than written.");
+ HDprintf(" At index %d,%d\n", i, j);
+ HDprintf(" direct_buf=%d, read_direct_buf=%d\n", direct_buf[i][j], read_direct_buf[i][j]);
+ goto error;
+ }
+ }
+ }
+
+ /*
+ * Close/release resources.
+ */
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ } H5E_END_TRY;
+
+ H5_FAILED();
+ return 1;
+} /* test_skip_compress_write1() */
+
+/*-------------------------------------------------------------------------
+ * Function: filter_bogus1
+ *
+ * Purpose: A bogus filter that adds ADD_ON to the original value
+ *
+ * Return: Success: Data chunk size
+ *
+ * Programmer: Raymond Lu
+ * 30 November 2012
+ *
+ *-------------------------------------------------------------------------
+ */
+static size_t
+filter_bogus1(unsigned int flags, size_t H5_ATTR_UNUSED cd_nelmts,
+ const unsigned int H5_ATTR_UNUSED *cd_values, size_t nbytes,
+ size_t *buf_size, void **buf)
+{
+ int *int_ptr=(int *)*buf; /* Pointer to the data values */
+ ssize_t buf_left=(ssize_t)*buf_size; /* Amount of data buffer left to process */
+
+ if(flags & H5Z_FLAG_REVERSE) { /* read */
+ /* Substract the "add on" value to all the data values */
+ while(buf_left>0) {
+ *int_ptr++ -= (int)ADD_ON;
+ buf_left -= (ssize_t)sizeof(int);
+ } /* end while */
+ } /* end if */
+ else { /* write */
+ /* Add the "add on" value to all the data values */
+ while(buf_left>0) {
+ *int_ptr++ += (int)ADD_ON;
+ buf_left -= (ssize_t)sizeof(int);
+ } /* end while */
+ } /* end else */
+
+ return nbytes;
+} /* filter_bogus1() */
+
+/*-------------------------------------------------------------------------
+ * Function: filter_bogus2
+ *
+ * Purpose: A bogus filter that multiplies the original value by FACTOR.
+ *
+ * Return: Success: Data chunk size
+ *
+ * Programmer: Raymond Lu
+ * 30 November 2012
+ *-------------------------------------------------------------------------
+ */
+static size_t
+filter_bogus2(unsigned int flags, size_t H5_ATTR_UNUSED cd_nelmts,
+ const unsigned int H5_ATTR_UNUSED *cd_values, size_t nbytes,
+ size_t *buf_size, void **buf)
+{
+ int *int_ptr=(int *)*buf; /* Pointer to the data values */
+ ssize_t buf_left=(ssize_t)*buf_size; /* Amount of data buffer left to process */
+
+ if(flags & H5Z_FLAG_REVERSE) { /* read */
+ /* Substract the "add on" value to all the data values */
+ while(buf_left>0) {
+ *int_ptr++ /= (int)FACTOR;
+ buf_left -= (ssize_t)sizeof(int);
+ } /* end while */
+ } /* end if */
+ else { /* write */
+ /* Add the "add on" value to all the data values */
+ while(buf_left>0) {
+ *int_ptr++ *= (int)FACTOR;
+ buf_left -= (ssize_t)sizeof(int);
+ } /* end while */
+ } /* end else */
+
+ return nbytes;
+} /* filter_bogus2() */
+
+/*-------------------------------------------------------------------------
+ * Function: test_skip_compress_write2
+ *
+ * Purpose: Test skipping compression filter when there are three filters
+ * for the dataset
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ * Programmer: Raymond Lu
+ * 30 November 2012
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+test_skip_compress_write2(hid_t file)
+{
+ hid_t dataspace = -1, dataset = -1;
+ hid_t mem_space = -1;
+ hid_t cparms = -1, dxpl = -1;
+ hsize_t dims[2] = {NX, NY};
+ hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED};
+ hsize_t chunk_dims[2] ={CHUNK_NX, CHUNK_NY};
+ herr_t status;
+ int i, j, n;
+
+ unsigned filter_mask = 0; /* orig filter mask */
+ int origin_direct_buf[CHUNK_NX][CHUNK_NY];
+ int direct_buf[CHUNK_NX][CHUNK_NY];
+ int check_chunk[CHUNK_NX][CHUNK_NY];
+ hsize_t offset[2] = {0, 0};
+ size_t buf_size = CHUNK_NX*CHUNK_NY*sizeof(int);
+ int aggression = 9; /* Compression aggression setting */
+
+ unsigned read_filter_mask = 0; /* filter mask after direct read */
+ int read_direct_buf[CHUNK_NX][CHUNK_NY];
+ hsize_t read_buf_size = 0; /* buf size */
+
+ hsize_t start[2]; /* Start of hyperslab */
+ hsize_t stride[2]; /* Stride of hyperslab */
+ hsize_t count[2]; /* Block count */
+ hsize_t block[2]; /* Block sizes */
+
+ TESTING("skipping compression filters but keep two other filters");
+
+ /*
+ * Create the data space with unlimited dimensions.
+ */
+ if((dataspace = H5Screate_simple(RANK, dims, maxdims)) < 0)
+ goto error;
+
+ if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
+ goto error;
+
+ /*
+ * Modify dataset creation properties, i.e. enable chunking and compression.
+ * The order of filters is bogus 1 + deflate + bogus 2.
+ */
+ if((cparms = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ goto error;
+
+ if((status = H5Pset_chunk( cparms, RANK, chunk_dims)) < 0)
+ goto error;
+
+ /* Register and enable first bogus filter */
+ if(H5Zregister (H5Z_BOGUS1) < 0)
+ goto error;
+
+ if(H5Pset_filter(cparms, H5Z_FILTER_BOGUS1, 0, (size_t)0, NULL) < 0)
+ goto error;
+
+ /* Enable compression filter */
+ if((status = H5Pset_deflate( cparms, (unsigned) aggression)) < 0)
+ goto error;
+
+ /* Register and enable second bogus filter */
+ if(H5Zregister (H5Z_BOGUS2) < 0)
+ goto error;
+
+ if(H5Pset_filter(cparms, H5Z_FILTER_BOGUS2, 0, (size_t)0, NULL) < 0)
+ goto error;
+
+ /*
+ * Create a new dataset within the file using cparms
+ * creation properties.
+ */
+ if((dataset = H5Dcreate2(file, DATASETNAME3, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
+ cparms, H5P_DEFAULT)) < 0)
+ goto error;
+
+ if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
+ goto error;
+
+ /* Initialize data for one chunk. Apply operations of two bogus filters to the chunk */
+ for(i = n = 0; i < CHUNK_NX; i++)
+ for(j = 0; j < CHUNK_NY; j++) {
+ origin_direct_buf[i][j] = n++;
+ direct_buf[i][j] = (origin_direct_buf[i][j] + ADD_ON) * FACTOR;
+ }
+
+ /* write the uncompressed chunk data repeatedly to dataset, using the direct writing function.
+ * Indicate skipping the compression filter but keep the other two bogus filters */
+ offset[0] = CHUNK_NX;
+ offset[1] = CHUNK_NY;
+
+ /* compression filter is the middle one to be skipped */
+ filter_mask = 0x00000002;
+
+ if((status = H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, direct_buf)) < 0)
+ goto error;
+
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ goto error;
+
+ if(H5Dclose(dataset) < 0)
+ goto error;
+
+ if((dataset = H5Dopen2(file, DATASETNAME3, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /*
+ * Select hyperslab for one chunk in the file
+ */
+ start[0] = CHUNK_NX; start[1] = CHUNK_NY;
+ stride[0] = 1; stride[1] = 1;
+ count[0] = 1; count[1] = 1;
+ block[0] = CHUNK_NX; block[1] = CHUNK_NY;
+ if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
+ goto error;
+
+ /* Read the chunk back */
+ if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
+ goto error;
+
+ /* Check that the values read are the same as the values written */
+ for(i = 0; i < CHUNK_NX; i++) {
+ for(j = 0; j < CHUNK_NY; j++) {
+ if(origin_direct_buf[i][j] != check_chunk[i][j]) {
+ HDprintf(" 1. Read different values than written.");
+ HDprintf(" At index %d,%d\n", i, j);
+ HDprintf(" origin_direct_buf=%d, check_chunk=%d\n", origin_direct_buf[i][j], check_chunk[i][j]);
+ goto error;
+ }
+ }
+ }
+
+ /* Query chunk storage size */
+ if((status = H5Dget_chunk_storage_size(dataset, offset, &read_buf_size)) < 0)
+ goto error;
+ if(read_buf_size != buf_size)
+ goto error;
+
+ /* Read the raw chunk back */
+ HDmemset(&read_direct_buf, 0, sizeof(read_direct_buf));
+ if((status = H5Dread_chunk(dataset, H5P_DEFAULT, offset, &read_filter_mask, read_direct_buf)) < 0)
+ goto error;
+ if(read_filter_mask != filter_mask)
+ goto error;
+
+ /* Check that the direct chunk read is the same as the chunk written */
+ for(i = 0; i < CHUNK_NX; i++) {
+ for(j = 0; j < CHUNK_NY; j++) {
+ if(direct_buf[i][j] != read_direct_buf[i][j]) {
+ HDprintf(" 1. Read different values than written.");
+ HDprintf(" At index %d,%d\n", i, j);
+ HDprintf(" direct_buf=%d, read_direct_buf=%d\n", direct_buf[i][j], read_direct_buf[i][j]);
+ goto error;
+ }
+ }
+ }
+
+ /*
+ * Close/release resources.
+ */
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ } H5E_END_TRY;
+
+ H5_FAILED();
+ return 1;
+} /* test_skip_compress_write2() */
+
+/*-------------------------------------------------------------------------
+ * Function: test_data_conv
+ *
+ * Purpose: Test data conversion
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ * Programmer: Raymond Lu
+ * 30 November 2012
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+test_data_conv(hid_t file)
+{
+ typedef struct {
+ int a, b, c[4], d, e;
+ } src_type_t;
+ typedef struct {
+ int a, c[4], e;
+ } dst_type_t;
+
+ hid_t dataspace = -1, dataset = -1;
+ hid_t mem_space = -1;
+ hid_t cparms = -1, dxpl = -1;
+ hsize_t dims[2] = {NX, NY};
+ hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED};
+ hsize_t chunk_dims[2] ={CHUNK_NX, CHUNK_NY};
+ herr_t status;
+ int i, j, n;
+ const hsize_t four = 4;
+ hid_t st=-1, dt=-1;
+ hid_t array_dt;
+
+ unsigned filter_mask = 0;
+ src_type_t direct_buf[CHUNK_NX][CHUNK_NY];
+ dst_type_t check_chunk[CHUNK_NX][CHUNK_NY];
+ src_type_t read_chunk[CHUNK_NX][CHUNK_NY]; /* For H5Dread_chunk */
+
+ hsize_t offset[2] = {0, 0};
+ size_t buf_size = CHUNK_NX*CHUNK_NY*sizeof(src_type_t);
+
+ hsize_t start[2]; /* Start of hyperslab */
+ hsize_t stride[2]; /* Stride of hyperslab */
+ hsize_t count[2]; /* Block count */
+ hsize_t block[2]; /* Block sizes */
+
+ TESTING("data conversion for H5Dwrite_chunk/H5Dread_chunk");
+
+ /*
+ * Create the data space with unlimited dimensions.
+ */
+ if((dataspace = H5Screate_simple(RANK, dims, maxdims)) < 0)
+ goto error;
+
+ if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
+ goto error;
+
+ /*
+ * Modify dataset creation properties, i.e. enable chunking
+ */
+ if((cparms = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ goto error;
+
+ if((status = H5Pset_chunk( cparms, RANK, chunk_dims)) < 0)
+ goto error;
+
+ /* Build hdf5 datatypes */
+ array_dt = H5Tarray_create2(H5T_NATIVE_INT, 1, &four);
+ if((st = H5Tcreate(H5T_COMPOUND, sizeof(src_type_t))) < 0 ||
+ H5Tinsert(st, "a", HOFFSET(src_type_t, a), H5T_NATIVE_INT) < 0 ||
+ H5Tinsert(st, "b", HOFFSET(src_type_t, b), H5T_NATIVE_INT) < 0 ||
+ H5Tinsert(st, "c", HOFFSET(src_type_t, c), array_dt) < 0 ||
+ H5Tinsert(st, "d", HOFFSET(src_type_t, d), H5T_NATIVE_INT) < 0 ||
+ H5Tinsert(st, "e", HOFFSET(src_type_t, e), H5T_NATIVE_INT) < 0)
+ goto error;
+
+ if(H5Tclose(array_dt) < 0)
+ goto error;
+
+ array_dt = H5Tarray_create2(H5T_NATIVE_INT, 1, &four);
+ if((dt = H5Tcreate(H5T_COMPOUND, sizeof(dst_type_t))) < 0 ||
+ H5Tinsert(dt, "a", HOFFSET(dst_type_t, a), H5T_NATIVE_INT) < 0 ||
+ H5Tinsert(dt, "c", HOFFSET(dst_type_t, c), array_dt) < 0 ||
+ H5Tinsert(dt, "e", HOFFSET(dst_type_t, e), H5T_NATIVE_INT) < 0)
+ goto error;
+
+ if(H5Tclose(array_dt) < 0)
+ goto error;
+
+ /*
+ * Create a new dataset within the file using cparms
+ * creation properties.
+ */
+ if((dataset = H5Dcreate2(file, DATASETNAME4, st, dataspace, H5P_DEFAULT,
+ cparms, H5P_DEFAULT)) < 0)
+ goto error;
+
+ if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
+ goto error;
+
+ /* Initialize data for one chunk */
+ for(i = n = 0; i < CHUNK_NX; i++) {
+ for(j = 0; j < CHUNK_NY; j++) {
+ (direct_buf[i][j]).a = i*j+0;
+ (direct_buf[i][j]).b = i*j+1;
+ (direct_buf[i][j]).c[0] = i*j+2;
+ (direct_buf[i][j]).c[1] = i*j+3;
+ (direct_buf[i][j]).c[2] = i*j+4;
+ (direct_buf[i][j]).c[3] = i*j+5;
+ (direct_buf[i][j]).d = i*j+6;
+ (direct_buf[i][j]).e = i*j+7;
+ }
+ }
+
+ /* write the chunk data to dataset, using the direct writing function.
+ * There should be no data conversion involved. */
+ offset[0] = CHUNK_NX;
+ offset[1] = CHUNK_NY;
+
+ if((status = H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, direct_buf)) < 0)
+ goto error;
+
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ goto error;
+
+ if(H5Dclose(dataset) < 0)
+ goto error;
+
+ if((dataset = H5Dopen2(file, DATASETNAME4, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /* Use H5Dread_chunk() to read the uncompressed data */
+ if((status = H5Dread_chunk(dataset, dxpl, offset, &filter_mask, read_chunk)) < 0)
+ goto error;
+
+ /* Check that the values read are the same as the values written */
+ for(i = 0; i < CHUNK_NX; i++) {
+ for(j = 0; j < CHUNK_NY; j++) {
+ if ((direct_buf[i][j]).a != (read_chunk[i][j]).a ||
+ (direct_buf[i][j]).b != (read_chunk[i][j]).b ||
+ (direct_buf[i][j]).c[0] != (read_chunk[i][j]).c[0] ||
+ (direct_buf[i][j]).c[1] != (read_chunk[i][j]).c[1] ||
+ (direct_buf[i][j]).c[2] != (read_chunk[i][j]).c[2] ||
+ (direct_buf[i][j]).c[3] != (read_chunk[i][j]).c[3] ||
+ (direct_buf[i][j]).d != (read_chunk[i][j]).d ||
+ (direct_buf[i][j]).e != (read_chunk[i][j]).e) {
+ HDprintf(" 1. Read different values than written.");
+ HDprintf(" At index %d,%d\n", i, j);
+ HDprintf(" src={a=%d, b=%d, c=[%d,%d,%d,%d], d=%d, e=%d\n",
+ (direct_buf[i][j]).a, (direct_buf[i][j]).b, (direct_buf[i][j]).c[0], (direct_buf[i][j]).c[1],
+ (direct_buf[i][j]).c[2], (direct_buf[i][j]).c[3], (direct_buf[i][j]).d, (direct_buf[i][j]).e);
+ HDprintf(" dst={a=%d, b=%d, c=[%d,%d,%d,%d], d=%d, e=%d\n",
+ (read_chunk[i][j]).a, (read_chunk[i][j]).b, (read_chunk[i][j]).c[0], (read_chunk[i][j]).c[1],
+ (read_chunk[i][j]).c[2], (read_chunk[i][j]).c[3], (read_chunk[i][j]).d, (read_chunk[i][j]).e);
+
+ goto error;
+ }
+ }
+ }
+
+ /*
+ * Select hyperslab for the chunk just written in the file
+ */
+ start[0] = CHUNK_NX; start[1] = CHUNK_NY;
+ stride[0] = 1; stride[1] = 1;
+ count[0] = 1; count[1] = 1;
+ block[0] = CHUNK_NX; block[1] = CHUNK_NY;
+ if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
+ goto error;
+
+ /* Read the chunk back. Data should be converted */
+ if((status = H5Dread(dataset, dt, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
+ goto error;
+
+ /* Check that the values read are the same as the values written */
+ for(i = 0; i < CHUNK_NX; i++) {
+ for(j = 0; j < CHUNK_NY; j++) {
+ if ((direct_buf[i][j]).a != (check_chunk[i][j]).a ||
+ (direct_buf[i][j]).c[0] != (check_chunk[i][j]).c[0] ||
+ (direct_buf[i][j]).c[1] != (check_chunk[i][j]).c[1] ||
+ (direct_buf[i][j]).c[2] != (check_chunk[i][j]).c[2] ||
+ (direct_buf[i][j]).c[3] != (check_chunk[i][j]).c[3] ||
+ (direct_buf[i][j]).e != (check_chunk[i][j]).e) {
+ HDprintf(" 1. Read different values than written.");
+ HDprintf(" At index %d,%d\n", i, j);
+ HDprintf(" src={a=%d, b=%d, c=[%d,%d,%d,%d], d=%d, e=%d\n",
+ (direct_buf[i][j]).a, (direct_buf[i][j]).b, (direct_buf[i][j]).c[0], (direct_buf[i][j]).c[1],
+ (direct_buf[i][j]).c[2], (direct_buf[i][j]).c[3], (direct_buf[i][j]).d, (direct_buf[i][j]).e);
+ HDprintf(" dst={a=%d, c=[%d,%d,%d,%d], e=%d\n",
+ (check_chunk[i][j]).a, (check_chunk[i][j]).c[0], (check_chunk[i][j]).c[1], (check_chunk[i][j]).c[2],
+ (check_chunk[i][j]).c[3], (check_chunk[i][j]).e);
+
+ goto error;
+ }
+ }
+ }
+
+ /*
+ * Close/release resources.
+ */
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ H5Tclose(st);
+ H5Tclose(dt);
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ H5Tclose(st);
+ H5Tclose(dt);
+ } H5E_END_TRY;
+
+ H5_FAILED();
+ return 1;
+} /* test_data_conv() */
+
+/*-------------------------------------------------------------------------
+ * Function: test_invalid_parameters
+ *
+ * Purpose: Test invalid parameters for H5Dwrite_chunk and H5Dread_chunk
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ * Programmer: Raymond Lu
+ * 30 November 2012
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+test_invalid_parameters(hid_t file)
+{
+ hid_t dataspace = -1, dataset = -1;
+ hid_t mem_space = -1;
+ hid_t cparms = -1, dxpl = -1;
+ hsize_t dims[2] = {NX, NY};
+ hsize_t chunk_dims[2] ={CHUNK_NX, CHUNK_NY};
+ herr_t status;
+ int i, j, n;
+
+ unsigned filter_mask = 0;
+ int direct_buf[CHUNK_NX][CHUNK_NY];
+ hsize_t offset[2] = {0, 0};
+ size_t buf_size = CHUNK_NX*CHUNK_NY*sizeof(int);
+ int aggression = 9; /* Compression aggression setting */
+
+ hsize_t chunk_nbytes; /* Chunk size */
+
+ TESTING("invalid parameters for H5Dwrite_chunk/H5Dread_chunk");
+
+ /*
+ * Create the data space with unlimited dimensions.
+ */
+ if((dataspace = H5Screate_simple(RANK, dims, NULL)) < 0)
+ goto error;
+
+ if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
+ goto error;
+
+ /*
+ * Modify dataset creation properties
+ */
+ if((cparms = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ goto error;
+
+ /*
+ * Create a new contiguous dataset to verify H5Dwrite_chunk/H5Dread_chunk doesn't work
+ */
+ if((dataset = H5Dcreate2(file, DATASETNAME5, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
+ cparms, H5P_DEFAULT)) < 0)
+ goto error;
+
+ if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
+ goto error;
+
+ /* Initialize data for one chunk */
+ for(i = n = 0; i < CHUNK_NX; i++)
+ for(j = 0; j < CHUNK_NY; j++) {
+ direct_buf[i][j] = n++;
+ }
+
+ /* Try to write the chunk data to contiguous dataset. It should fail */
+ offset[0] = CHUNK_NX;
+ offset[1] = CHUNK_NY;
+
+ H5E_BEGIN_TRY {
+ if((status = H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ /* Try to get chunk size for a contiguous dataset. It should fail */
+ H5E_BEGIN_TRY {
+ if((status = H5Dget_chunk_storage_size(dataset, offset, &chunk_nbytes)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ /* Try to H5Dread_chunk from the contiguous dataset. It should fail */
+ H5E_BEGIN_TRY {
+ if((status = H5Dread_chunk(dataset, dxpl, offset, &filter_mask, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ if(H5Dclose(dataset) < 0)
+ goto error;
+
+
+ /* Create a chunked dataset with compression filter */
+ if((status = H5Pset_chunk( cparms, RANK, chunk_dims)) < 0)
+ goto error;
+
+ if((status = H5Pset_deflate( cparms, (unsigned ) aggression)) < 0)
+ goto error;
+
+ /*
+ * Create a new dataset within the file using cparms
+ * creation properties.
+ */
+ if((dataset = H5Dcreate2(file, DATASETNAME6, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
+ cparms, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /* Check invalid dataset ID for H5Dwrite_chunk and H5Dread_chunk */
+ H5E_BEGIN_TRY {
+ if((status = H5Dwrite_chunk((hid_t)-1, dxpl, filter_mask, offset, buf_size, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ H5E_BEGIN_TRY {
+ if((status = H5Dread_chunk((hid_t)-1, dxpl, offset, &filter_mask, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ /* Check invalid DXPL ID for H5Dwrite_chunk and H5Dread_chunk */
+ H5E_BEGIN_TRY {
+ if((status = H5Dwrite_chunk(dataset, (hid_t)-1, filter_mask, offset, buf_size, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ H5E_BEGIN_TRY {
+ if((status = H5Dread_chunk(dataset, (hid_t)-1, offset, &filter_mask, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ /* Check invalid OFFSET for H5Dwrite_chunk and H5Dread_chunk */
+ H5E_BEGIN_TRY {
+ if((status = H5Dwrite_chunk(dataset, dxpl, filter_mask, NULL, buf_size, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ H5E_BEGIN_TRY {
+ if((status = H5Dread_chunk(dataset, dxpl, NULL, &filter_mask, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ /* Check when OFFSET is out of dataset range for H5Dwrite_chunk and H5Dread_chunk */
+ offset[0] = NX + 1;
+ offset[1] = NY;
+ H5E_BEGIN_TRY {
+ if((status = H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ H5E_BEGIN_TRY {
+ if((status = H5Dread_chunk(dataset, dxpl, offset, &filter_mask, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ /* Check when OFFSET is not on chunk boundary for H5Dwrite_chunk and H5Dread_chunk */
+ offset[0] = CHUNK_NX;
+ offset[1] = CHUNK_NY + 1;
+ H5E_BEGIN_TRY {
+ if((status = H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ H5E_BEGIN_TRY {
+ if((status = H5Dread_chunk(dataset, dxpl, offset, &filter_mask, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ /* Check invalid buffer size for H5Dwrite_chunk only */
+ offset[0] = CHUNK_NX;
+ offset[1] = CHUNK_NY;
+ buf_size = 0;
+ H5E_BEGIN_TRY {
+ if((status = H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, direct_buf)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ /* Check invalid data buffer for H5Dwrite_chunk and H5Dread_chunk */
+ buf_size = CHUNK_NX*CHUNK_NY*sizeof(int);
+ H5E_BEGIN_TRY {
+ if((status = H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, NULL)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ H5E_BEGIN_TRY {
+ if((status = H5Dread_chunk(dataset, dxpl, offset, &filter_mask, NULL)) != FAIL)
+ goto error;
+ } H5E_END_TRY;
+
+ if(H5Dclose(dataset) < 0)
+ goto error;
+
+ /*
+ * Close/release resources.
+ */
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ } H5E_END_TRY;
+
+ H5_FAILED();
+ return 1;
+} /* test_invalid_parameters() */
+
+/*-------------------------------------------------------------------------
+ * Function: test_direct_chunk_read_no_cache
+ *
+ * Purpose: Test the basic functionality of H5Dread_chunk with the
+ * chunk cache diabled.
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ * Programmer: Matthew Strong (GE Healthcare)
+ * 14 February 2016
+ *
+ *-------------------------------------------------------------------------
+ */
+#ifdef H5_HAVE_FILTER_DEFLATE
+static int
+test_direct_chunk_read_no_cache (hid_t file)
+{
+ hid_t dataspace = -1, dataset = -1;
+ hid_t mem_space = -1;
+ hid_t cparms = -1, dxpl = -1, dapl = -1;
+ hsize_t dims[2] = {NX, NY};
+ hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED};
+ hsize_t chunk_dims[2] = {CHUNK_NX, CHUNK_NY};
+ herr_t status; /* status from H5 function calls */
+ int ret; /* deflate return status */
+ int data[NX][NY];
+ int i, j, k, l, n; /* local index variables */
+
+ unsigned filter_mask = 0; /* filter mask returned from H5Dread_chunk */
+ int direct_buf[CHUNK_NX][CHUNK_NY]; /* chunk read with H5Dread and manually decompressed */
+ int check_chunk[CHUNK_NX][CHUNK_NY]; /* chunk read with H5Dread */
+ hsize_t offset[2]; /* chunk offset used for H5Dread_chunk */
+ size_t buf_size = CHUNK_NX*CHUNK_NY*sizeof(int);
+
+ Bytef *z_src = NULL; /* source buffer */
+ uLongf z_src_nbytes = (uLongf)DEFLATE_SIZE_ADJUST(buf_size);
+ Bytef *z_dst = (Bytef*)(direct_buf);
+ uLong z_dst_nbytes = (uLong)buf_size;
+ int aggression = 9; /* Compression aggression setting */
+ void *outbuf = NULL; /* Pointer to new buffer */
+
+ hsize_t start[2]; /* Start of hyperslab */
+ hsize_t stride[2]; /* Stride of hyperslab */
+ hsize_t count[2]; /* Block count */
+ hsize_t block[2]; /* Block sizes */
+
+ TESTING("basic functionality of H5Dread_chunk (chunk cache disabled)");
+
+ /* Create the data space with unlimited dimensions. */
+ if((dataspace = H5Screate_simple(RANK, dims, maxdims)) < 0)
+ goto error;
+ if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
+ goto error;
+
+ /* Modify dataset creation properties, i.e. enable chunking and compression */
+ if((cparms = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ goto error;
+ if((status = H5Pset_chunk( cparms, RANK, chunk_dims)) < 0)
+ goto error;
+ if((status = H5Pset_deflate( cparms, (unsigned) aggression)) < 0)
+ goto error;
+ if((dapl = H5Pcreate(H5P_DATASET_ACCESS)) < 0)
+ goto error;
+
+ /* Disable chunk cache by setting number of slots to 0 */
+ if((status = H5Pset_chunk_cache(dapl, 0, H5D_CHUNK_CACHE_NBYTES_DEFAULT, H5D_CHUNK_CACHE_W0_DEFAULT)) < 0)
+ goto error;
+
+ /* Create a new dataset within the file using cparms creation properties. */
+ if((dataset = H5Dcreate2(file, DATASETNAME8, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
+ cparms, dapl)) < 0)
+ goto error;
+
+ /* Initialize the dataset */
+ for(i = n = 0; i < NX; i++)
+ for(j = 0; j < NY; j++)
+ data[i][j] = n++;
+
+ if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
+ goto error;
+
+ /* Write the data for the dataset.
+ * Data will skip chunk cache and go directly to disk. */
+ if((status = H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL,
+ dxpl, data)) < 0)
+ goto error;
+
+ /* Allocate output (compressed) buffer */
+ outbuf = HDmalloc(z_src_nbytes);
+ z_src = (Bytef *)outbuf;
+
+ /* For each chunk in the dataset, compare the result of H5Dread and H5Dread_chunk. */
+ for(i=0; i<NX/CHUNK_NX; i++) {
+ for(j=0; j<NY/CHUNK_NY; j++) {
+ /* Select hyperslab for one chunk in the file */
+ start[0] = (hsize_t)i * CHUNK_NX; start[1] = (hsize_t)j * CHUNK_NY;
+ stride[0] = 1; stride[1] = 1;
+ count[0] = 1; count[1] = 1;
+ block[0] = CHUNK_NX; block[1] = CHUNK_NY;
+
+ /* Hyperslab selection equals single chunk */
+ if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
+ goto error;
+
+ /* Read the chunk back */
+ if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
+ goto error;
+
+ offset[0] = (hsize_t)i * CHUNK_NX; offset[1] = (hsize_t)j * CHUNK_NY;
+ /* Read the compressed chunk back using the direct read function. */
+ if((status = H5Dread_chunk(dataset, dxpl, offset, &filter_mask, outbuf)) < 0)
+ goto error;
+
+ /* Check filter mask return value */
+ if(filter_mask != 0)
+ goto error;
+
+ /* Perform decompression from the source to the destination buffer */
+ ret = uncompress(z_dst, &z_dst_nbytes, z_src, z_src_nbytes);
+
+ /* Check for various zlib errors */
+ if(Z_BUF_ERROR == ret) {
+ HDfprintf(stderr, "overflow\n");
+ goto error;
+ } else if(Z_MEM_ERROR == ret) {
+ HDfprintf(stderr, "deflate memory error\n");
+ goto error;
+ } else if(Z_DATA_ERROR == ret) {
+ HDfprintf(stderr, "corrupted data\n");
+ goto error;
+ } else if(Z_OK != ret) {
+ HDfprintf(stderr, "other deflate error\n");
+ goto error;
+ }
+
+ /* Check that the decompressed values match those read from H5Dread */
+ for(k = 0; k < CHUNK_NX; k++) {
+ for(l = 0; l < CHUNK_NY; l++) {
+ if(direct_buf[k][l] != check_chunk[k][l]) {
+ HDprintf("\n 1. Read different values than written.");
+ HDprintf(" At index %d,%d\n", k, l);
+ HDprintf(" direct_buf=%d, check_chunk=%d\n", direct_buf[k][l], check_chunk[k][l]);
+ goto error;
+ }
+ }
+ }
+ }
+ }
+
+ /* Close/release resources. */
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ H5Pclose(dapl);
+
+ if(outbuf)
+ HDfree(outbuf);
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ H5Pclose(dapl);
+ } H5E_END_TRY;
+
+ if(outbuf)
+ HDfree(outbuf);
+
+ H5_FAILED();
+ return 1;
+} /* test_direct_chunk_read_no_cache() */
+#endif /* H5_HAVE_FILTER_DEFLATE */
+
+#ifdef H5_HAVE_FILTER_DEFLATE
+static int
+test_direct_chunk_read_cache (hid_t file, hbool_t flush)
+{
+ hid_t dataspace = -1, dataset = -1;
+ hid_t mem_space = -1;
+ hid_t cparms = -1, dxpl = -1;
+ hsize_t dims[2] = {NX, NY};
+ hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED};
+ hsize_t chunk_dims[2] = {CHUNK_NX, CHUNK_NY};
+ herr_t status; /* status from H5 function calls */
+ int ret; /* deflate return status */
+ int data[NX][NY];
+ int i, j, k, l, n; /* local index variables */
+
+ unsigned filter_mask = 0; /* filter mask returned from H5Dread_chunk */
+ int direct_buf[CHUNK_NX][CHUNK_NY]; /* chunk read with H5Dread and manually decompressed */
+ int check_chunk[CHUNK_NX][CHUNK_NY]; /* chunk read with H5Dread */
+ hsize_t offset[2]; /* chunk offset used for H5Dread_chunk */
+ size_t buf_size = CHUNK_NX*CHUNK_NY*sizeof(int);
+
+ Bytef *z_src = NULL; /* source buffer */
+ uLongf z_src_nbytes = (uLongf)DEFLATE_SIZE_ADJUST(buf_size);
+ Bytef *z_dst = (Bytef*)(direct_buf);
+ uLong z_dst_nbytes = (uLong)buf_size;
+ int aggression = 9; /* Compression aggression setting */
+ void *outbuf = NULL; /* Pointer to new buffer */
+ hsize_t read_buf_size = 0;
+
+ hsize_t start[2]; /* Start of hyperslab */
+ hsize_t stride[2]; /* Stride of hyperslab */
+ hsize_t count[2]; /* Block count */
+ hsize_t block[2]; /* Block sizes */
+
+ if(flush) {
+ TESTING("basic functionality of H5Dread_chunk (flush chunk cache)");
+ } else {
+ TESTING("basic functionality of H5Dread_chunk (does not flush chunk cache)");
+ }
+
+ /* Create the data space with unlimited dimensions. */
+ if((dataspace = H5Screate_simple(RANK, dims, maxdims)) < 0)
+ goto error;
+ if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
+ goto error;
+
+ /* Modify dataset creation properties, i.e. enable chunking and compression */
+ if((cparms = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ goto error;
+ if((status = H5Pset_chunk( cparms, RANK, chunk_dims)) < 0)
+ goto error;
+ if((status = H5Pset_deflate( cparms, (unsigned) aggression)) < 0)
+ goto error;
+
+ /* Create a new dataset within the file using cparms creation properties. */
+ if((dataset = H5Dcreate2(file, flush?DATASETNAME9:DATASETNAME10, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
+ cparms, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /* Initialize the dataset */
+ for(i = n = 0; i < NX; i++)
+ for(j = 0; j < NY; j++)
+ data[i][j] = n++;
+
+ if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
+ goto error;
+
+ /* Write the data for the dataset.
+ * It should stay in the chunk cache. */
+ if((status = H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL,
+ dxpl, data)) < 0)
+ goto error;
+
+ if(flush) {
+ /* Flush the chunk cache to disk. Cache entry is not evicted. */
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ goto error;
+ }
+
+ /* Allocate output (compressed) buffer */
+ outbuf = HDmalloc(z_src_nbytes);
+ z_src = (Bytef *)outbuf;
+
+ /* For each chunk in the dataset, compare the result of H5Dread and H5Dread_chunk. */
+ for(i=0; i<NX/CHUNK_NX; i++) {
+ for(j=0; j<NY/CHUNK_NY; j++) {
+ /* Select hyperslab for one chunk in the file */
+ start[0] = (hsize_t)i * CHUNK_NX; start[1] = (hsize_t)j * CHUNK_NY;
+ stride[0] = 1; stride[1] = 1;
+ count[0] = 1; count[1] = 1;
+ block[0] = CHUNK_NX; block[1] = CHUNK_NY;
+
+ /* Hyperslab selection equals single chunk */
+ if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
+ goto error;
+
+ /* Read the chunk back */
+ if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
+ goto error;
+
+ offset[0] = (hsize_t)i * CHUNK_NX; offset[1] = (hsize_t)j * CHUNK_NY;
+
+ /* Query chunk storage size */
+ if((status = H5Dget_chunk_storage_size(dataset, offset, &read_buf_size)) < 0)
+ goto error;
+ if(read_buf_size == 0)
+ goto error;
+
+ /* Read the compressed chunk back using the direct read function. */
+ if((status = H5Dread_chunk(dataset, dxpl, offset, &filter_mask, outbuf)) < 0)
+ goto error;
+
+ /* Check filter mask return value */
+ if(filter_mask != 0)
+ goto error;
+
+ /* Perform decompression from the source to the destination buffer */
+ ret = uncompress(z_dst, &z_dst_nbytes, z_src, z_src_nbytes);
+
+ /* Check for various zlib errors */
+ if(Z_BUF_ERROR == ret) {
+ HDfprintf(stderr, "overflow\n");
+ goto error;
+ } else if(Z_MEM_ERROR == ret) {
+ HDfprintf(stderr, "deflate memory error\n");
+ goto error;
+ } else if(Z_DATA_ERROR == ret) {
+ HDfprintf(stderr, "corrupted data\n");
+ goto error;
+ } else if(Z_OK != ret) {
+ HDfprintf(stderr, "other deflate error\n");
+ goto error;
+ }
+
+ /* Check that the decompressed values match those read from H5Dread */
+ for(k = 0; k < CHUNK_NX; k++) {
+ for(l = 0; l < CHUNK_NY; l++) {
+ if(direct_buf[k][l] != check_chunk[k][l]) {
+ HDprintf("\n 1. Read different values than written.");
+ HDprintf(" At index %d,%d\n", k, l);
+ HDprintf(" direct_buf=%d, check_chunk=%d\n", direct_buf[k][l], check_chunk[k][l]);
+ goto error;
+ }
+ }
+ }
+ }
+ }
+
+ /* Close/release resources. */
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+
+ if(outbuf)
+ HDfree(outbuf);
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ } H5E_END_TRY;
+
+ if(outbuf)
+ HDfree(outbuf);
+
+ H5_FAILED();
+ return 1;
+} /* test_direct_chunk_read_cache() */
+#endif /* H5_HAVE_FILTER_DEFLATE */
+
+/*-------------------------------------------------------------------------
+ * Function: test_read_unfiltered_dset
+ *
+ * Purpose: Test the basic functionality of H5Dread_chunk on a dataset
+ * without no filters applied.
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ * Programmer: Matthew Strong (GE Healthcare)
+ * 30 November 2016
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+test_read_unfiltered_dset(hid_t file)
+{
+ hid_t dataspace = -1, dataset = -1;
+ hid_t mem_space = -1;
+ hid_t cparms = -1, dxpl = -1;
+ hsize_t dims[2] = {NX, NY};
+ hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED};
+ hsize_t chunk_dims[2] ={CHUNK_NX, CHUNK_NY};
+ herr_t status;
+ int data[NX][NY];
+ int i, j, k, l, n;
+
+ unsigned filter_mask = 0;
+ int direct_buf[CHUNK_NX][CHUNK_NY];
+ int check_chunk[CHUNK_NX][CHUNK_NY]; /* chunk read with H5Dread */
+ hsize_t offset[2] = {0, 0};
+ size_t buf_size = CHUNK_NX*CHUNK_NY*sizeof(int);
+ hsize_t read_buf_size = 0;
+
+ hsize_t start[2]; /* Start of hyperslab */
+ hsize_t stride[2]; /* Stride of hyperslab */
+ hsize_t count[2]; /* Block count */
+ hsize_t block[2]; /* Block sizes */
+
+ TESTING("basic functionality of H5Dread_chunk on unfiltered datasets");
+
+ /* Create the data space with unlimited dimensions. */
+ if((dataspace = H5Screate_simple(RANK, dims, maxdims)) < 0)
+ goto error;
+ if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
+ goto error;
+
+ /* Modify dataset creation properties, i.e. enable chunking, no compression */
+ if((cparms = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ goto error;
+ if((status = H5Pset_chunk( cparms, RANK, chunk_dims)) < 0)
+ goto error;
+
+ /* Create a new dataset within the file using cparms creation properties. */
+ if((dataset = H5Dcreate2(file, DATASETNAME12, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
+ cparms, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /* Initialize the dataset */
+ for(i = n = 0; i < NX; i++)
+ for(j = 0; j < NY; j++)
+ data[i][j] = n++;
+
+ if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
+ goto error;
+
+ /* Write the data for the dataset.
+ * It should stay in the chunk cache and will be evicted/flushed by
+ * the H5Dread_chunk function call. */
+ if((status = H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL,
+ dxpl, data)) < 0)
+ goto error;
+
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ goto error;
+
+ /* For each chunk in the dataset, compare the result of H5Dread and H5Dread_chunk. */
+ for(i=0; i<NX/CHUNK_NX; i++) {
+ for(j=0; j<NY/CHUNK_NY; j++) {
+ /* Select hyperslab for one chunk in the file */
+ start[0] = (hsize_t)i * CHUNK_NX; start[1] = (hsize_t)j * CHUNK_NY;
+ stride[0] = 1; stride[1] = 1;
+ count[0] = 1; count[1] = 1;
+ block[0] = CHUNK_NX; block[1] = CHUNK_NY;
+
+ /* Hyperslab selection equals single chunk */
+ if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
+ goto error;
+
+ /* Read the chunk back */
+ if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
+ goto error;
+
+ /* Query chunk storage size */
+ if((status = H5Dget_chunk_storage_size(dataset, offset, &read_buf_size)) < 0)
+ goto error;
+
+ if(read_buf_size != buf_size )
+ goto error;
+
+ offset[0] = (hsize_t)i * CHUNK_NX; offset[1] = (hsize_t)j * CHUNK_NY;
+ /* Read the raw chunk back */
+ HDmemset(&direct_buf, 0, sizeof(direct_buf));
+ filter_mask = UINT_MAX;
+ if((status = H5Dread_chunk(dataset, dxpl, offset, &filter_mask, direct_buf)) < 0)
+ goto error;
+
+ /* Check filter mask return value */
+ if(filter_mask != 0)
+ goto error;
+
+ /* Check that the decompressed values match those read from H5Dread */
+ for(k = 0; k < CHUNK_NX; k++) {
+ for(l = 0; l < CHUNK_NY; l++) {
+ if(direct_buf[k][l] != check_chunk[k][l]) {
+ HDprintf("\n 1. Read different values than written.");
+ HDprintf(" At index %d,%d\n", k, l);
+ HDprintf(" direct_buf=%d, check_chunk=%d\n", direct_buf[k][l], check_chunk[k][l]);
+ goto error;
+ }
+ }
+ }
+ }
+ }
+
+ /* Close/release resources. */
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ } H5E_END_TRY;
+
+ H5_FAILED();
+ return 1;
+} /* test_read_unfiltered_dset() */
+
+/*-------------------------------------------------------------------------
+ * Function: test_read_unallocated_chunk
+ *
+ * Purpose: Tests the H5Dread_chunk and H5Dget_chunk_storage_size with valid
+ * offets to chunks that have not been written to the dataset and are
+ * not allocated in the chunk storage on disk.
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ * Programmer: Matthew Strong (GE Healthcare)
+ * 30 November 2016
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+test_read_unallocated_chunk (hid_t file)
+{
+ hid_t dataspace = -1, dataset = -1;
+ hid_t mem_space = -1;
+ hid_t cparms = -1, dxpl = -1;
+ hsize_t dims[2] = {NX, NY};
+ hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED};
+ hsize_t chunk_dims[2] = {CHUNK_NX, CHUNK_NY};
+ hsize_t chunk_nbytes = CHUNK_NX*CHUNK_NY*sizeof(int);
+ hsize_t direct_chunk_nbytes = 0; /* size (bytes) of the on-disk chunk */
+ herr_t status; /* status from H5 function calls */
+ hsize_t i, j; /* local index variables */
+
+ unsigned filter_mask = 0; /* filter mask returned from H5Dread_chunk */
+ int direct_buf[CHUNK_NX][CHUNK_NY]; /* chunk read with H5Dread and manually decompressed */
+ hsize_t offset[2]; /* chunk offset used for H5Dread_chunk */
+
+ TESTING("H5Dread_chunk with unallocated chunks");
+
+ /* Create the data space with unlimited dimensions. */
+ if((dataspace = H5Screate_simple(RANK, dims, maxdims)) < 0)
+ goto error;
+ if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
+ goto error;
+
+ /* Modify dataset creation properties, i.e. enable chunking, no compression */
+ if((cparms = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ goto error;
+ if((status = H5Pset_chunk( cparms, RANK, chunk_dims)) < 0)
+ goto error;
+
+ /* Create a new dataset within the file using cparms creation properties. */
+ if((dataset = H5Dcreate2(file, DATASETNAME11, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
+ cparms, H5P_DEFAULT)) < 0)
+ goto error;
+
+ if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
+ goto error;
+
+ /* Write a single chunk to intialize the chunk storage */
+ HDmemset(&chunk_dims, 0, sizeof(chunk_dims));
+ offset[0] = 0; offset[1] = 0;
+
+ if(H5Dwrite_chunk(dataset, dxpl, filter_mask, offset, chunk_nbytes, &chunk_dims) < 0)
+ goto error;
+
+ /* Attempt to read each chunk in the dataset. Chunks are not allocated,
+ * therefore we expect the result of H5Dread_chunk to fail. Chunk idx starts
+ * at 1, since one chunk was written to init the chunk storage. */
+ for(i=1; i<NX/CHUNK_NX; i++) {
+ for(j=0; j<NY/CHUNK_NY; j++) {
+
+ offset[0] = i * CHUNK_NX;
+ offset[1] = j * CHUNK_NY;
+
+ /* Read a non-existant chunk using the direct read function. */
+ H5E_BEGIN_TRY {
+ status = H5Dread_chunk(dataset, dxpl, offset, &filter_mask, &direct_buf);
+ } H5E_END_TRY;
+
+ /* Check that the chunk read call does not succeed. */
+ if(status != -1)
+ goto error;
+
+ /* Query the size of the non-existant chunk */
+ direct_chunk_nbytes = ULONG_MAX;
+ H5E_BEGIN_TRY {
+ status = H5Dget_chunk_storage_size(dataset, offset, &direct_chunk_nbytes);
+ } H5E_END_TRY;
+
+ /* Check that the chunk storage size call does not succeed. */
+ if(status != -1 )
+ goto error;
+ if(direct_chunk_nbytes != 0 )
+ goto error;
+
+ }
+ }
+
+ /* Close/release resources. */
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Dclose(dataset);
+ H5Sclose(mem_space);
+ H5Sclose(dataspace);
+ H5Pclose(cparms);
+ H5Pclose(dxpl);
+ } H5E_END_TRY;
+
+ H5_FAILED();
+ return 1;
+} /* test_read_unallocated_chunk() */
+
+/*-------------------------------------------------------------------------
+ * Function: test_single_chunk_latest
+ *
+ * Purpose: This is to verify the fix for jira issue HDFFV-10425.
+ * The problem was due to a bug in the internal ilbrary routine
+ * H5D__chunk_direct_write() which passed a null dataset
+ * pointer to the insert callback for the chunk index type.
+ * Currently, the single chunk index is the only one that
+ * used the dataset pointer in the insert callback.
+ *
+ * This routine is based on the test program attached to
+ * this jira issue:
+ * Create a file with the latest format and a chunked dataset
+ * with one single chunk. The library will use single chunk
+ * index for the dataset.
+ * Verify that the data read is the same as the written data.
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ *-------------------------------------------------------------------------
+ */
+static int
+test_single_chunk_latest(void)
+{
+ hid_t fid; /* File ID */
+ hid_t fapl; /* File access property list ID */
+ hid_t sid; /* Dataspace ID */
+ hid_t did; /* Dataset ID */
+ hid_t dcpl; /* Dataset creation property list */
+ hsize_t dims[2] = {DIM0, DIM1}; /* Dimension sizes */
+ hsize_t chunk[2] = {CHUNK0, CHUNK1}; /* Chunk dimension sizes */
+ hsize_t offset[2] = {0,0}; /* Offset for writing */
+ int wdata[DIM0][DIM1]; /* Write buffer */
+ int rdata[DIM0][DIM1]; /* Read buffer */
+ int i, j; /* Local index variable */
+
+ TESTING("H5Dwrite_chunk with single chunk and latest format");
+
+ /* Initialize data */
+ for (i=0; i<DIM0; i++) {
+ for (j=0; j< DIM1; j++)
+ wdata[i][j] = j/CHUNK0;
+ }
+
+ /* Create a new file with the latest format */
+ if((fapl = H5Pcreate(H5P_FILE_ACCESS)) < 0)
+ goto error;
+ if(H5Pset_libver_bounds(fapl, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST) < 0)
+ goto error;
+ if((fid = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, fapl)) < 0)
+ goto error;
+
+ /* Create dataspace */
+ if((sid = H5Screate_simple(2, dims, NULL)) < 0)
+ goto error;
+
+ /* Create the dataset creation property list and set the chunk size */
+ if((dcpl = H5Pcreate(H5P_DATASET_CREATE)) < 0)
+ goto error;
+ if(H5Pset_chunk(dcpl, 2, chunk) < 0)
+ goto error;
+
+ /* Create the dataset */
+ if((did = H5Dcreate2(fid, DATASET, H5T_NATIVE_INT, sid, H5P_DEFAULT, dcpl, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /* Write the data directly to the dataset */
+ if(H5Dwrite_chunk(did, H5P_DEFAULT, 0, offset, CHUNK0*CHUNK1*4, (void *)wdata) < 0)
+ goto error;
+
+ /*
+ * Close and release resources.
+ */
+ if(H5Pclose(dcpl) < 0)
+ goto error;
+ if(H5Dclose(did) < 0)
+ goto error;
+ if(H5Sclose(sid) < 0)
+ goto error;
+ if(H5Pclose(fapl) < 0)
+ goto error;
+ if(H5Fclose(fid) < 0)
+ goto error;
+
+ /* Open the file and dataset with default properties */
+ if((fid = H5Fopen(FILE, H5F_ACC_RDONLY, H5P_DEFAULT)) < 0)
+ goto error;
+ if((did = H5Dopen2(fid, DATASET, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /* Retrieve dataset creation property list */
+ if((dcpl = H5Dget_create_plist(did)) < 0)
+ goto error;
+
+ /* Read the data */
+ if(H5Dread(did, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, rdata) < 0)
+ goto error;
+
+ /* Verify that the data read was correct. */
+ for (i = 0; i < DIM0; i++) {
+ for (j = 0; j < DIM1; j++) {
+ if(rdata[i][j] != wdata[i][j])
+ goto error;
+ }
+ }
+
+ /*
+ * Close and release resources
+ */
+ if(H5Pclose(dcpl) < 0)
+ goto error;
+ if(H5Dclose(did) < 0)
+ goto error;
+ if(H5Fclose(fid) < 0)
+ goto error;
+
+ PASSED();
+ return 0;
+
+error:
+ H5E_BEGIN_TRY {
+ H5Dclose(did);
+ H5Sclose(sid);
+ H5Pclose(dcpl);
+ H5Pclose(fapl);
+ H5Fclose(fid);
+ } H5E_END_TRY;
+
+ H5_FAILED();
+ return 1;
+} /* test_single_chunk_latest() */
+
+/*-------------------------------------------------------------------------
+ * Function: Main function
+ *
+ * Purpose: Test direct chunk write function H5Dwrite_chunk and
+ * chunk direct read function H5Dread_chunk
+ *
+ * Return: Success: 0
+ * Failure: 1
+ *
+ * Programmer: Raymond Lu
+ * 30 November 2012
+ *
+ *-------------------------------------------------------------------------
+ */
+int main( void )
+{
+ hid_t file_id;
+ int nerrors=0;
+
+ /*
+ * Create a new file. If file exists its contents will be overwritten.
+ */
+ if((file_id = H5Fcreate(FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT)) < 0)
+ goto error;
+
+ /* Test direct chunk write and direct chunk read */
+#ifdef H5_HAVE_FILTER_DEFLATE
+ nerrors += test_direct_chunk_write(file_id);
+#endif /* H5_HAVE_FILTER_DEFLATE */
+ nerrors += test_direct_chunk_overwrite_data(file_id);
+ nerrors += test_skip_compress_write1(file_id);
+ nerrors += test_skip_compress_write2(file_id);
+ nerrors += test_data_conv(file_id);
+ nerrors += test_invalid_parameters(file_id);
+
+ /* Test direct chunk read */
+#ifdef H5_HAVE_FILTER_DEFLATE
+ nerrors += test_direct_chunk_read_no_cache(file_id);
+ nerrors += test_direct_chunk_read_cache(file_id, TRUE);
+ nerrors += test_direct_chunk_read_cache(file_id, FALSE);
+#endif /* H5_HAVE_FILTER_DEFLATE */
+ nerrors += test_read_unfiltered_dset(file_id);
+ nerrors += test_read_unallocated_chunk(file_id);
+
+ nerrors += test_single_chunk_latest();
+
+ if(H5Fclose(file_id) < 0)
+ goto error;
+
+ /* check for errors */
+ if (nerrors)
+ goto error;
+
+ HDputs("All direct chunk read/write tests passed.");
+ return EXIT_SUCCESS;
+
+error:
+ HDputs("*** TESTS FAILED ***");
+ return EXIT_FAILURE;
+}
diff --git a/test/testfiles/err_compat_1 b/test/testfiles/err_compat_1
index d471e13..8190665 100644
--- a/test/testfiles/err_compat_1
+++ b/test/testfiles/err_compat_1
@@ -54,6 +54,6 @@ HDF5-DIAG: Error detected in HDF5 (version (number)) thread (IDs):
#001: (file name) line (number) in test_error2(): H5Dwrite shouldn't succeed
major: Error API
minor: Write failed
- #002: (file name) line (number) in H5Dwrite(): not a dataset
+ #002: (file name) line (number) in H5Dwrite(): dset_id is not a dataset ID
major: Invalid arguments to routine
minor: Inappropriate type
diff --git a/test/testfiles/error_test_1 b/test/testfiles/error_test_1
index b0b5085..02cfed8 100644
--- a/test/testfiles/error_test_1
+++ b/test/testfiles/error_test_1
@@ -21,7 +21,7 @@ Error Test-DIAG: Error detected in Error Program (1.0) thread (IDs):
Testing error API based on data I/O
HDF5-DIAG: Error detected in HDF5 (version (number)) thread (IDs):
- #000: (file name) line (number) in H5Dwrite(): not a dataset
+ #000: (file name) line (number) in H5Dwrite(): dset_id is not a dataset ID
major: Invalid arguments to routine
minor: Inappropriate type
Error Test-DIAG: Error detected in Error Program (1.0) thread (IDs):
@@ -32,7 +32,7 @@ Error Test-DIAG: Error detected in Error Program (1.0) thread (IDs):
major: Error in IO
minor: Error in H5Dwrite
HDF5-DIAG: Error detected in HDF5 (version (number)) thread (IDs):
- #002: (file name) line (number) in H5Dwrite(): not a dataset
+ #002: (file name) line (number) in H5Dwrite(): dset_id is not a dataset ID
major: Invalid arguments to routine
minor: Inappropriate type