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authorVailin Choi <vchoi@jam.ad.hdfgroup.org>2017-05-15 15:25:15 (GMT)
committerVailin Choi <vchoi@jam.ad.hdfgroup.org>2017-05-15 15:25:15 (GMT)
commit54dff331778a660824961fdf6359e4eae998a13c (patch)
tree7159bd62ec8989568677bc4963ef321a01d34fc4 /hl
parent5e60a0e10e167f9caa8de84100f22f47658f2cf2 (diff)
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Incorporate additional code changes for the H5DOread_chunk patch from GE Heathcare (HDFFV-9934)
This is the similar set of changes that was checked in to 1.8 branch: Incorporate the code changes that were missing from the original patch: (1) Additional tests in hl/test/test_dset_opt.c (2) Fix in src/H5Dchunk.c for direct access when an entry is in chunk cache but not dirty Tested on platypus, ostrich, kituo, mayll, osx1010test, moohan, quail, emu.
Diffstat (limited to 'hl')
-rw-r--r--hl/test/test_dset_opt.c1132
1 files changed, 809 insertions, 323 deletions
diff --git a/hl/test/test_dset_opt.c b/hl/test/test_dset_opt.c
index b868a2a..4b5fa19 100644
--- a/hl/test/test_dset_opt.c
+++ b/hl/test/test_dset_opt.c
@@ -26,6 +26,7 @@
#define FILE_NAME "test_dectris.h5"
+/* Datasets for Direct Write tests */
#define DATASETNAME1 "direct_write"
#define DATASETNAME2 "skip_one_filter"
#define DATASETNAME3 "skip_two_filters"
@@ -33,13 +34,20 @@
#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) (ceil(((double)(s))*(double)1.001F)+12)
+#define DEFLATE_SIZE_ADJUST(s) (ceil(((double)(s))*1.001)+12)
/* Temporary filter IDs used for testing */
#define H5Z_FILTER_BOGUS1 305
@@ -84,10 +92,10 @@ const H5Z_class2_t H5Z_BOGUS2[1] = {{
/*-------------------------------------------------------------------------
* Function: test_direct_chunk_write
*
- * Purpose: Test the basic functionality of H5DOwrite_chunk/H5DOread_chunk
+ * Purpose: Test the basic functionality of H5DOwrite_chunk
*
- * Return: Success: 0
- * Failure: 1
+ * Return: Success: 0
+ * Failure: 1
*
* Programmer: Raymond Lu
* 30 November 2012
@@ -110,31 +118,24 @@ test_direct_chunk_write (hid_t file)
int i, j, n;
unsigned filter_mask = 0;
- unsigned read_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; /*destination buffer */
+ 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 */
-
- /* For H5DOread_chunk() */
- void *readbuf = NULL; /* Buffer for reading data */
- const Bytef *pt_readbuf; /* Point to the buffer for data read */
- hsize_t read_chunk_nbytes; /* Size of chunk on disk */
- int read_dst_buf[CHUNK_NX][CHUNK_NY]; /* Buffer to hold un-compressed data */
+ 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 H5DOwrite_chunk/H5DOread_chunk");
+ TESTING("basic functionality of H5DOwrite_chunk");
/*
* Create the data space with unlimited dimensions.
@@ -165,76 +166,26 @@ test_direct_chunk_write (hid_t file)
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;
- HDmemset(data, 0, sizeof(data));
- /* Initialize data for the first chunk */
- for(i = n = 0; i < CHUNK_NX; i++)
- for(j = 0; j < CHUNK_NY; j++)
- data[i][j] = n++;
-
/*
- * Write the data for the dataset. */
+ * Write the data for the dataset. It should stay in the chunk cache.
+ * It will be evicted from the cache by the H5DOwrite_chunk calls.
+ */
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;
-
- if(H5Dclose(dataset) < 0)
- goto error;
-
- if((dataset = H5Dopen2(file, DATASETNAME1, H5P_DEFAULT)) < 0)
- goto error;
-
- offset[0] = offset[1] = 0;
-
- /* Get the size of the compressed chunk */
- ret = H5Dget_chunk_storage_size(dataset, offset, &read_chunk_nbytes);
-
- readbuf = HDmalloc(read_chunk_nbytes);
- pt_readbuf = (const Bytef *)readbuf;
-
- /* Test to use H5DOread_chunk() to read the chunk back */
- if((status = H5DOread_chunk(dataset, H5P_DEFAULT, offset, &read_filter_mask, readbuf)) < 0)
- goto error;
-
- /* uncompress(Bytef *dest, uLongf *destLen, const Bytef *source, uLong sourceLen) */
- ret = uncompress((Bytef *)read_dst_buf, (uLongf *)&buf_size, pt_readbuf, (uLong)read_chunk_nbytes);
-
- /* Check for various zlib errors */
- if(Z_BUF_ERROR == ret) {
- HDfprintf(stderr, "error: not enough room in output buffer");
- goto error;
- } else if(Z_MEM_ERROR == ret) {
- HDfprintf(stderr, "error: not enough memory");
- goto error;
- } else if(Z_OK != ret) {
- HDfprintf(stderr, "error: corrupted input data");
- 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(data[i][j] != read_dst_buf[i][j]) {
- printf(" 1. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" data=%d, read_dst_buf=%d\n", data[i][j], read_dst_buf[i][j]);
- goto error;
- }
- }
- }
-
- if(readbuf)
- HDfree(readbuf);
-
/* 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++;
+ direct_buf[i][j] = n++;
/* Allocate output (compressed) buffer */
outbuf = HDmalloc(z_dst_nbytes);
@@ -255,8 +206,8 @@ test_direct_chunk_write (hid_t file)
goto error;
}
- /* Write the compressed chunk data repeatedly to cover all the chunks in the
- * dataset, using the direct writing function. */
+ /* 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 = H5DOwrite_chunk(dataset, dxpl, filter_mask, offset, z_dst_nbytes, outbuf);
@@ -269,7 +220,7 @@ test_direct_chunk_write (hid_t file)
if(outbuf)
HDfree(outbuf);
- if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
goto error;
if(H5Dclose(dataset) < 0)
@@ -278,59 +229,6 @@ test_direct_chunk_write (hid_t file)
if((dataset = H5Dopen2(file, DATASETNAME1, H5P_DEFAULT)) < 0)
goto error;
- offset[0] = CHUNK_NX;
- offset[1] = CHUNK_NY;
-
- /* Get the size of the compressed chunk */
- ret = H5Dget_chunk_storage_size(dataset, offset, &read_chunk_nbytes);
-
- if(read_chunk_nbytes != (hsize_t)z_dst_nbytes) {
- HDfprintf(stderr, "Read/write chunk size not the same.");
- goto error;
- }
-
- readbuf = HDmalloc(read_chunk_nbytes);
- pt_readbuf = (const Bytef *)readbuf;
-
- /* Test to use H5DOread_chunk() to read the chunk back */
- if((status = H5DOread_chunk(dataset, H5P_DEFAULT, offset, &read_filter_mask, readbuf)) < 0)
- goto error;
-
- if(read_filter_mask != filter_mask) {
- HDfprintf(stderr, " Read/write filter mask not the same.");
- goto error;
- }
-
- /* uncompress(Bytef *dest, uLongf *destLen, const Bytef *source, uLong sourceLen) */
- ret = uncompress((Bytef *)read_dst_buf, (uLongf *)&buf_size, pt_readbuf, (uLong)read_chunk_nbytes);
-
- /* Check for various zlib errors */
- if(Z_BUF_ERROR == ret) {
- HDfprintf(stderr, "error: not enough room in output buffer");
- goto error;
- } else if(Z_MEM_ERROR == ret) {
- HDfprintf(stderr, "error: not enough memory");
- goto error;
- } else if(Z_OK != ret) {
- HDfprintf(stderr, "error: corrupted input data");
- 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] != read_dst_buf[i][j]) {
- printf(" 1. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" direct_buf=%d, read_dst_buf=%d\n", direct_buf[i][j], read_dst_buf[i][j]);
- goto error;
- }
- }
- }
-
- if(readbuf)
- HDfree(readbuf);
-
/*
* Select hyperslab for one chunk in the file
*/
@@ -341,7 +239,7 @@ test_direct_chunk_write (hid_t file)
if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
goto error;
- /* Test to use H5Dread() to read the chunk back */
+ /* Read the chunk back */
if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
goto error;
@@ -349,25 +247,23 @@ test_direct_chunk_write (hid_t file)
for(i = 0; i < CHUNK_NX; i++) {
for(j = 0; j < CHUNK_NY; j++) {
if(direct_buf[i][j] != check_chunk[i][j]) {
- printf(" 1. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" direct_buf=%d, check_chunk=%d\n", 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;
+ 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);
@@ -383,8 +279,8 @@ test_direct_chunk_write (hid_t file)
goto error;
}
- /* Rewrite the compressed chunk data repeatedly to cover all the chunks in the
- * dataset, using the direct writing function. */
+ /* 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++) {
@@ -398,7 +294,7 @@ test_direct_chunk_write (hid_t file)
if(outbuf)
HDfree(outbuf);
- if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
goto error;
if(H5Dclose(dataset) < 0)
@@ -407,60 +303,7 @@ test_direct_chunk_write (hid_t file)
if((dataset = H5Dopen2(file, DATASETNAME1, H5P_DEFAULT)) < 0)
goto error;
- offset[0] = CHUNK_NX;
- offset[1] = CHUNK_NY;
-
- /* Get the size of the compressed chunk */
- ret = H5Dget_chunk_storage_size(dataset, offset, &read_chunk_nbytes);
-
- if(read_chunk_nbytes != (hsize_t)z_dst_nbytes) {
- HDfprintf(stderr, "Read/write chunk size not the same.");
- goto error;
- }
-
- readbuf = HDmalloc(read_chunk_nbytes);
- pt_readbuf = (const Bytef *)readbuf;
-
- /* Test to use H5DOread_chunk() to read the chunk back */
- if((status = H5DOread_chunk(dataset, H5P_DEFAULT, offset, &read_filter_mask, readbuf)) < 0)
- goto error;
-
- if(read_filter_mask != filter_mask) {
- HDfprintf(stderr, " Read/write filter mask not the same.");
- goto error;
- }
-
- /* uncompress(Bytef *dest, uLongf *destLen, const Bytef *source, uLong sourceLen) */
- ret = uncompress((Bytef *)read_dst_buf, (uLongf *)&buf_size, pt_readbuf, (uLong)read_chunk_nbytes);
-
- /* Check for various zlib errors */
- if(Z_BUF_ERROR == ret) {
- HDfprintf(stderr, "error: not enough room in output buffer");
- goto error;
- } else if(Z_MEM_ERROR == ret) {
- HDfprintf(stderr, "error: not enough memory");
- goto error;
- } else if(Z_OK != ret) {
- HDfprintf(stderr, "error: corrupted input data");
- 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] != read_dst_buf[i][j]) {
- printf(" 1. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" direct_buf=%d, my_buf=%d\n", direct_buf[i][j], read_dst_buf[i][j]);
- goto error;
- }
- }
- }
-
- if(readbuf)
- HDfree(readbuf);
-
- /* Test to use H5Dread() to read the chunk back */
+ /* Read the chunk back */
if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
goto error;
@@ -468,9 +311,9 @@ test_direct_chunk_write (hid_t file)
for(i = 0; i < CHUNK_NX; i++) {
for(j = 0; j < CHUNK_NY; j++) {
if(direct_buf[i][j] != check_chunk[i][j]) {
- printf(" 2. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" direct_buf=%d, check_chunk=%d\n", 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;
}
}
@@ -484,7 +327,7 @@ test_direct_chunk_write (hid_t file)
H5Sclose(dataspace);
H5Pclose(cparms);
H5Pclose(dxpl);
-
+
PASSED();
return 0;
@@ -499,11 +342,10 @@ error:
if(outbuf)
HDfree(outbuf);
- if(readbuf)
- HDfree(readbuf);
+ H5_FAILED();
return 1;
-}
+} /* test_direct_chunk_write() */
#endif /* H5_HAVE_FILTER_DEFLATE */
/*-------------------------------------------------------------------------
@@ -608,13 +450,14 @@ error:
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
+ * Purpose: Test skipping compression filter when it is the only filter
* for the dataset
*
* Return: Success: 0
@@ -631,20 +474,23 @@ 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 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;
- unsigned read_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 */
@@ -690,8 +536,8 @@ test_skip_compress_write1(hid_t file)
direct_buf[i][j] = n++;
}
- /* write the uncompressed chunk data repeatedly to dataset, using the direct writing function.
- * Indicate skipping the compression filter. */
+ /* 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;
@@ -700,7 +546,7 @@ test_skip_compress_write1(hid_t file)
if((status = H5DOwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, direct_buf)) < 0)
goto error;
- if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
goto error;
if(H5Dclose(dataset) < 0)
@@ -709,51 +555,52 @@ test_skip_compress_write1(hid_t file)
if((dataset = H5Dopen2(file, DATASETNAME2, H5P_DEFAULT)) < 0)
goto error;
- /* Use H5DOread_chunk() to read the uncompressed data */
- if((status = H5DOread_chunk(dataset, dxpl, offset, &read_filter_mask, check_chunk)) < 0)
+ /*
+ * 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;
- if(read_filter_mask != filter_mask) {
- HDfprintf(stderr, " Read/write filter mask not the same.");
+ /* 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]) {
- printf(" 1. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" direct_buf=%d, check_chunk=%d\n", 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;
}
}
}
- /* Clear the buffer */
- HDmemset(check_chunk, 0, buf_size);
-
- /*
- * 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)
+ /* 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;
- /* Use H5Dread() to read the chunk back */
- if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
+ /* Read the raw chunk back */
+ HDmemset(&read_direct_buf, 0, sizeof(read_direct_buf));
+ if((status = H5DOread_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 values read are the same as the values written */
+ /* 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] != check_chunk[i][j]) {
- printf(" 1. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" direct_buf=%d, check_chunk=%d\n", direct_buf[i][j], check_chunk[i][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;
}
}
@@ -767,7 +614,7 @@ test_skip_compress_write1(hid_t file)
H5Sclose(dataspace);
H5Pclose(cparms);
H5Pclose(dxpl);
-
+
PASSED();
return 0;
@@ -780,8 +627,9 @@ error:
H5Pclose(dxpl);
} H5E_END_TRY;
+ H5_FAILED();
return 1;
-}
+} /* test_skip_compress_write1() */
/*-------------------------------------------------------------------------
* Function: filter_bogus1
@@ -819,7 +667,7 @@ filter_bogus1(unsigned int flags, size_t H5_ATTR_UNUSED cd_nelmts,
} /* end else */
return nbytes;
-}
+} /* filter_bogus1() */
/*-------------------------------------------------------------------------
* Function: filter_bogus2
@@ -856,16 +704,16 @@ filter_bogus2(unsigned int flags, size_t H5_ATTR_UNUSED cd_nelmts,
} /* end else */
return nbytes;
-}
+} /* filter_bogus2() */
/*-------------------------------------------------------------------------
* Function: test_skip_compress_write2
*
- * Purpose: Test skipping compression filter when there are three filters
+ * Purpose: Test skipping compression filter when there are three filters
* for the dataset
*
- * Return: Success: 0
- * Failure: 1
+ * Return: Success: 0
+ * Failure: 1
*
* Programmer: Raymond Lu
* 30 November 2012
@@ -878,25 +726,28 @@ 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 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;
- unsigned read_filter_mask = 0;
+ 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 */
+ int aggression = 9; /* Compression aggression setting */
- 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 */
+ 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");
@@ -920,10 +771,10 @@ test_skip_compress_write2(hid_t file)
goto error;
/* Register and enable first bogus filter */
- if(H5Zregister (H5Z_BOGUS1) < 0)
+ if(H5Zregister (H5Z_BOGUS1) < 0)
goto error;
- if(H5Pset_filter(cparms, H5Z_FILTER_BOGUS1, 0, (size_t)0, NULL) < 0)
+ if(H5Pset_filter(cparms, H5Z_FILTER_BOGUS1, 0, (size_t)0, NULL) < 0)
goto error;
/* Enable compression filter */
@@ -931,10 +782,10 @@ test_skip_compress_write2(hid_t file)
goto error;
/* Register and enable second bogus filter */
- if(H5Zregister (H5Z_BOGUS2) < 0)
+ if(H5Zregister (H5Z_BOGUS2) < 0)
goto error;
- if(H5Pset_filter(cparms, H5Z_FILTER_BOGUS2, 0, (size_t)0, NULL) < 0)
+ if(H5Pset_filter(cparms, H5Z_FILTER_BOGUS2, 0, (size_t)0, NULL) < 0)
goto error;
/*
@@ -955,8 +806,8 @@ test_skip_compress_write2(hid_t file)
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 */
+ /* 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;
@@ -966,7 +817,7 @@ test_skip_compress_write2(hid_t file)
if((status = H5DOwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, direct_buf)) < 0)
goto error;
- if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
+ if(H5Fflush(dataset, H5F_SCOPE_LOCAL) < 0)
goto error;
if(H5Dclose(dataset) < 0)
@@ -975,56 +826,52 @@ test_skip_compress_write2(hid_t file)
if((dataset = H5Dopen2(file, DATASETNAME3, H5P_DEFAULT)) < 0)
goto error;
- /* Use H5DOread_chunk() to read the uncompressed data */
- if((status = H5DOread_chunk(dataset, dxpl, offset, &read_filter_mask, check_chunk)) < 0)
+ /*
+ * 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;
- if(read_filter_mask != filter_mask) {
- HDfprintf(stderr, " Read/write filter mask not the same.");
+ /* Read the chunk back */
+ if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
goto error;
- }
-
- /* De-compress the operations of the two bogus filters to the chunk */
- for(i = n = 0; i < CHUNK_NX; i++)
- for(j = 0; j < CHUNK_NY; j++)
- check_chunk[i][j] = (check_chunk[i][j]/FACTOR) - ADD_ON;
/* 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]) {
- printf(" 1. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" origin_direct_buf=%d, check_chunk=%d\n", 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;
}
}
}
- /* Clear the buffer */
- HDmemset(check_chunk, 0, buf_size);
-
- /*
- * 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)
+ /* 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;
- /* Use H5Dread() to read the chunk back */
- if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
+ /* Read the raw chunk back */
+ HDmemset(&read_direct_buf, 0, sizeof(read_direct_buf));
+ if((status = H5DOread_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 values read are the same as the values written */
+ /* 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(origin_direct_buf[i][j] != check_chunk[i][j]) {
- printf(" 1. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" origin_direct_buf=%d, check_chunk=%d\n", origin_direct_buf[i][j], check_chunk[i][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;
}
}
@@ -1038,7 +885,7 @@ test_skip_compress_write2(hid_t file)
H5Sclose(dataspace);
H5Pclose(cparms);
H5Pclose(dxpl);
-
+
PASSED();
return 0;
@@ -1051,16 +898,17 @@ error:
H5Pclose(dxpl);
} H5E_END_TRY;
+ H5_FAILED();
return 1;
-}
+} /* test_skip_compress_write2() */
/*-------------------------------------------------------------------------
* Function: test_data_conv
*
- * Purpose: Test data conversion
+ * Purpose: Test data conversion
*
- * Return: Success: 0
- * Failure: 1
+ * Return: Success: 0
+ * Failure: 1
*
* Programmer: Raymond Lu
* 30 November 2012
@@ -1202,13 +1050,13 @@ test_data_conv(hid_t file)
(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) {
- printf(" 1. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" 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],
+ 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);
- printf(" 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],
+ 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;
@@ -1216,7 +1064,6 @@ test_data_conv(hid_t file)
}
}
-
/*
* Select hyperslab for the chunk just written in the file
*/
@@ -1234,22 +1081,22 @@ test_data_conv(hid_t file)
/* 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) {
- printf(" 1. Read different values than written.");
- printf(" At index %d,%d\n", i, j);
- printf(" 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);
- printf(" 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);
+ 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;
+ goto error;
}
}
}
@@ -1265,7 +1112,6 @@ test_data_conv(hid_t file)
H5Tclose(st);
H5Tclose(dt);
-
PASSED();
return 0;
@@ -1280,16 +1126,17 @@ error:
H5Tclose(dt);
} H5E_END_TRY;
+ H5_FAILED();
return 1;
-}
+} /* test_data_conv() */
/*-------------------------------------------------------------------------
* Function: test_invalid_parameters
*
- * Purpose: Test invalid parameters for H5DOwrite_chunk and H5DOread_chunk
+ * Purpose: Test invalid parameters for H5DOwrite_chunk and H5DOread_chunk
*
- * Return: Success: 0
- * Failure: 1
+ * Return: Success: 0
+ * Failure: 1
*
* Programmer: Raymond Lu
* 30 November 2012
@@ -1357,7 +1204,7 @@ test_invalid_parameters(hid_t file)
goto error;
} H5E_END_TRY;
- /* Try to get chunk size for a contiguous dataset. It should fail */
+ /* 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;
@@ -1372,6 +1219,7 @@ test_invalid_parameters(hid_t file)
if(H5Dclose(dataset) < 0)
goto error;
+
/* Create a chunked dataset with compression filter */
if((status = H5Pset_chunk( cparms, RANK, chunk_dims)) < 0)
goto error;
@@ -1387,7 +1235,7 @@ test_invalid_parameters(hid_t file)
cparms, H5P_DEFAULT)) < 0)
goto error;
- /* Check invalid dataset ID for H5DOwrite_chunk and H5DOread_chunk */
+ /* Check invalid dataset ID for H5DOwrite_chunk and H5DOread_chunk */
H5E_BEGIN_TRY {
if((status = H5DOwrite_chunk((hid_t)-1, dxpl, filter_mask, offset, buf_size, direct_buf)) != FAIL)
goto error;
@@ -1490,8 +1338,635 @@ error:
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 H5DOread_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 H5DOread_chunk */
+ int direct_buf[CHUNK_NX][CHUNK_NY]; /* chunk read with H5DOread and manually decompressed */
+ int check_chunk[CHUNK_NX][CHUNK_NY]; /* chunk read with H5Dread */
+ hsize_t offset[2]; /* chunk offset used for H5DOread_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 H5DOread_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 H5DOread_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 = H5DOread_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 H5DOread_chunk */
+ int direct_buf[CHUNK_NX][CHUNK_NY]; /* chunk read with H5DOread and manually decompressed */
+ int check_chunk[CHUNK_NX][CHUNK_NY]; /* chunk read with H5Dread */
+ hsize_t offset[2]; /* chunk offset used for H5DOread_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 H5DOread_chunk (flush chunk cache)");
+ } else {
+ TESTING("basic functionality of H5DOread_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 H5DOread_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 = H5DOread_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 H5DOread_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 H5DOread_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 H5DOread_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 H5DOread_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 = H5DOread_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 H5DOread_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 H5DOread_chunk */
+ int direct_buf[CHUNK_NX][CHUNK_NY]; /* chunk read with H5DOread and manually decompressed */
+ hsize_t offset[2]; /* chunk offset used for H5DOread_chunk */
+
+ TESTING("H5DOread_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(H5DOwrite_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 H5DOread_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 = H5DOread_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: Main function
@@ -1528,6 +2003,15 @@ int main( void )
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);
+
if(H5Fclose(file_id) < 0)
goto error;
@@ -1535,8 +2019,10 @@ int main( void )
if (nerrors)
goto error;
- return 0;
+ HDputs("All direct chunk read/write tests passed.");
+ return EXIT_SUCCESS;
error:
- return 1;
+ HDputs("*** TESTS FAILED ***");
+ return EXIT_FAILURE;
}