Incorporate patch from GE Healthcare (HDFFV-9934)

This is the same patch that had already been integrated to 1.8 branch (pull request #387).
Tested on moohan, ostrich, platypus, emu, osx1010test, quail, kituo, mayll.

3 files changed, 460 insertions, 88 deletions

diff --git a/hl/src/H5DO.c b/hl/src/H5DO.c
index 8db6768..22d40fc 100644
--- a/hl/src/H5DO.c
+++ b/hl/src/H5DO.c
@@ -32,7 +32,7 @@
  * Return:	Non-negative on success/Negative on failure
  *
  * Programmer:	Raymond Lu
- *		30 July 2012
+ *		        30 July 2012
  *
  *-------------------------------------------------------------------------
  */
@@ -60,7 +60,7 @@ H5DOwrite_chunk(hid_t dset_id, hid_t dxpl_id, uint32_t filters, const hsize_t *o
 
     /* If the user passed in a default DXPL, create one to pass to H5Dwrite() */
     if(H5P_DEFAULT == dxpl_id) {
-	if((dxpl_id = H5Pcreate(H5P_DATASET_XFER)) < 0)
+        if((dxpl_id = H5Pcreate(H5P_DATASET_XFER)) < 0)
             goto done;
         created_dxpl = TRUE;
     } /* end if */
@@ -87,16 +87,87 @@ done:
         if(H5Pclose(dxpl_id) < 0)
             ret_value = FAIL;
     } /* end if */
-    else
+    else {
         /* Reset the direct write flag on user DXPL */
+        do_direct_write = FALSE;
         if(H5Pset(dxpl_id, H5D_XFER_DIRECT_CHUNK_WRITE_FLAG_NAME, &do_direct_write) < 0)
             ret_value = FAIL;
+    }
 
     return(ret_value);
 } /* end H5DOwrite_chunk() */
 
 
-/*
+/*-------------------------------------------------------------------------
+ * Function:    H5DOread_chunk
+ *
+ * Purpose:     Reads an entire chunk from the file directly.
+ *
+ * Return:      Non-negative on success/Negative on failure
+ *
+ * Programmer:  Matthew Strong (GE Healthcare)
+ *              14 February 2016
+ *
+ *---------------------------------------------------------------------------
+ */
+herr_t
+H5DOread_chunk(hid_t dset_id, hid_t dxpl_id, const hsize_t *offset, uint32_t *filters,
+         void *buf)
+{
+    hbool_t created_dxpl = FALSE;       /* Whether we created a DXPL */
+    hbool_t do_direct_read = TRUE;     /* Flag for direct writes */
+    herr_t  ret_value = FAIL;           /* Return value */
+
+    /* Check arguments */
+    if(dset_id < 0)
+        goto done;
+    if(!buf)
+        goto done;
+    if(!offset)
+        goto done;
+    if(!filters)
+        goto done;
+
+    /* If the user passed in a default DXPL, create one to pass to H5Dwrite() */
+    if(H5P_DEFAULT == dxpl_id) {
+        if((dxpl_id = H5Pcreate(H5P_DATASET_XFER)) < 0)
+            goto done;
+        created_dxpl = TRUE;
+    } /* end if */
+
+    /* Set direct write parameters */
+    if(H5Pset(dxpl_id, H5D_XFER_DIRECT_CHUNK_READ_FLAG_NAME, &do_direct_read) < 0)
+        goto done;
+    if(H5Pset(dxpl_id, H5D_XFER_DIRECT_CHUNK_READ_OFFSET_NAME, &offset) < 0)
+        goto done;
+
+    /* Read chunk */
+    if(H5Dread(dset_id, 0, H5S_ALL, H5S_ALL, dxpl_id, buf) < 0)
+        goto done;
+    /* Get the filter mask */
+    if(H5Pget(dxpl_id, H5D_XFER_DIRECT_CHUNK_READ_FILTERS_NAME, filters) < 0)
+        goto done;
+
+    /* Indicate success */
+    ret_value = SUCCEED;
+
+done:
+    if(created_dxpl) {
+        if(H5Pclose(dxpl_id) < 0)
+            ret_value = FAIL;
+    } /* end if */
+    else {
+        /* Reset the direct read flag on user DXPL */
+        do_direct_read = FALSE;
+        if(H5Pset(dxpl_id, H5D_XFER_DIRECT_CHUNK_READ_FLAG_NAME, &do_direct_read) < 0)
+            ret_value = FAIL;
+    }
+
+    return(ret_value);
+} /* end H5DOread_chunk() */
+
+
+/*-------------------------------------------------------------------------
  * Function:	H5DOappend()
  *
  * Purpose:     To append elements to a dataset.
@@ -122,6 +193,8 @@ done:
  *		  ret_value = FAIL;
  *		  goto done;
  *   		}
+ *
+ *-------------------------------------------------------------------------
  */
 herr_t
 H5DOappend(hid_t dset_id, hid_t dxpl_id, unsigned axis, size_t extension, 
diff --git a/hl/src/H5DOpublic.h b/hl/src/H5DOpublic.h
index ce0d32e..d5c8de4 100644
--- a/hl/src/H5DOpublic.h
+++ b/hl/src/H5DOpublic.h
@@ -28,6 +28,12 @@ extern "C" {
 H5_HLDLL herr_t H5DOwrite_chunk(hid_t dset_id, hid_t dxpl_id, uint32_t filters, 
     const hsize_t *offset, size_t data_size, const void *buf);
 
+H5_HLDLL herr_t H5DOread_chunk(hid_t dset_id, /*in*/
+            hid_t dxpl_id,         /*in*/
+            const hsize_t *offset, /*in*/
+            uint32_t *filters,     /*out*/
+            void *buf);            /*out*/
+
 H5_HLDLL herr_t H5DOappend(hid_t dset_id, hid_t dxpl_id, unsigned axis,
     size_t extension, hid_t memtype, const void *buf);
 
diff --git a/hl/test/test_dset_opt.c b/hl/test/test_dset_opt.c
index 03c467a..d3a6b5c 100644
--- a/hl/test/test_dset_opt.c
+++ b/hl/test/test_dset_opt.c
@@ -76,11 +76,10 @@ const H5Z_class2_t H5Z_BOGUS2[1] = {{
 /*-------------------------------------------------------------------------
  * Function:	test_direct_chunk_write
  *
- * Purpose:	Test the basic functionality of H5DOwrite_chunk
+ * Purpose:	Test the basic functionality of H5DOwrite_chunk/H5DOread_chunk
  *
  * Return:	Success:	0
- *
- *		Failure:	1
+ *		    Failure:	1
  *
  * Programmer:  Raymond Lu	
  *              30 November 2012
@@ -103,24 +102,31 @@ 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;		        /*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 */
+    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 */
 
     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");
+    TESTING("basic functionality of H5DOwrite_chunk/H5DOread_chunk");
 
     /*
      * Create the data space with unlimited dimensions.
@@ -151,26 +157,76 @@ 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.  It should stay in the chunk cache.
-     * It will be evicted from the cache by the H5DOwrite_chunk calls. 
-     */
+     * Write the data for the dataset. */
     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);
@@ -181,18 +237,18 @@ test_direct_chunk_write (hid_t file)
 
     /* Check for various zlib errors */
     if(Z_BUF_ERROR == ret) {
-        fprintf(stderr, "overflow");
+        HDfprintf(stderr, "overflow");
         goto error;
     } else if(Z_MEM_ERROR == ret) {
-	fprintf(stderr, "deflate memory error");
+        HDfprintf(stderr, "deflate memory error");
         goto error;
     } else if(Z_OK != ret) {
-	fprintf(stderr, "other deflate error");
+        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.     */ 
+    /* 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);
@@ -205,7 +261,7 @@ 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)
@@ -214,6 +270,59 @@ 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
      */
@@ -224,7 +333,7 @@ test_direct_chunk_write (hid_t file)
     if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
         goto error;
 
-    /* Read the chunk back */
+    /* Test to use H5Dread() to read the chunk back */
     if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
         goto error;
 
@@ -234,38 +343,40 @@ test_direct_chunk_write (hid_t file)
             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]); 
+                printf("    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);
 
     /* Check for various zlib errors */
     if(Z_BUF_ERROR == ret) {
-        fprintf(stderr, "overflow");
+        HDfprintf(stderr, "overflow");
         goto error;
     } else if(Z_MEM_ERROR == ret) {
-	fprintf(stderr, "deflate memory error");
+        HDfprintf(stderr, "deflate memory error");
         goto error;
     } else if(Z_OK != ret) {
-	fprintf(stderr, "other deflate error");
+        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.     */ 
+    /* 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++) {
@@ -279,7 +390,7 @@ 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)
@@ -288,7 +399,60 @@ test_direct_chunk_write (hid_t file)
     if((dataset = H5Dopen2(file, DATASETNAME1, H5P_DEFAULT)) < 0)
         goto error;
 
-    /* Read the chunk back */
+    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 */
     if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
         goto error;
 
@@ -298,7 +462,7 @@ test_direct_chunk_write (hid_t file)
             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]); 
+                printf("    direct_buf=%d, check_chunk=%d\n", direct_buf[i][j], check_chunk[i][j]);
                 goto error;
             }
         }
@@ -312,7 +476,7 @@ test_direct_chunk_write (hid_t file)
     H5Sclose(dataspace);
     H5Pclose(cparms);
     H5Pclose(dxpl);
-    
+
     PASSED();
     return 0;
 
@@ -327,6 +491,8 @@ error:
 
     if(outbuf)
         HDfree(outbuf);
+    if(readbuf)
+        HDfree(readbuf);
 
     return 1;
 }
@@ -335,12 +501,11 @@ error:
 /*-------------------------------------------------------------------------
  * 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
- *
- *		Failure:	1
+ *		    Failure:	1
  *
  * Programmer:  Raymond Lu	
  *              30 November 2012
@@ -360,6 +525,7 @@ test_skip_compress_write1(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};
@@ -371,7 +537,7 @@ test_skip_compress_write1(hid_t file)
     hsize_t count[2];  /* Block count */
     hsize_t block[2];  /* Block sizes */
 
-    TESTING("skipping compression filter for H5DOwrite_chunk");
+    TESTING("skipping compression filter for H5DOwrite_chunk/H5DOread_chunk");
 
     /*
      * Create the data space with unlimited dimensions.
@@ -408,7 +574,7 @@ test_skip_compress_write1(hid_t file)
     /* 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++;
     }
 
     /* write the uncompressed chunk data repeatedly to dataset, using the direct writing function. 
@@ -430,6 +596,30 @@ 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)
+        goto error;
+
+    if(read_filter_mask != filter_mask) {
+        HDfprintf(stderr, "    Read/write filter mask not the same.");
+        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]);
+                goto error;
+            }
+        }
+    }
+
+    /* Clear the buffer */
+    HDmemset(check_chunk, 0, buf_size);
+
     /*
      * Select hyperslab for the chunk just written in the file
      */
@@ -440,7 +630,7 @@ test_skip_compress_write1(hid_t file)
     if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
         goto error;
 
-    /* Read the chunk back */
+    /* Use H5Dread() to read the chunk back */
     if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
         goto error;
 
@@ -483,9 +673,9 @@ error:
 /*-------------------------------------------------------------------------
  * Function:	filter_bogus1
  *
- * Purpose:	A bogus filte that adds ADD_ON to the original value
+ * Purpose:	    A bogus filter that adds ADD_ON to the original value
  *
- * Return:	Success:	Data chunk size
+ * Return:	    Success:	Data chunk size
  *
  * Programmer:  Raymond Lu	
  *              30 November 2012
@@ -558,12 +748,11 @@ filter_bogus2(unsigned int flags, size_t H5_ATTR_UNUSED cd_nelmts,
 /*-------------------------------------------------------------------------
  * 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
@@ -583,6 +772,7 @@ test_skip_compress_write2(hid_t file)
     int         i, j, n;
 
     unsigned    filter_mask = 0;
+    unsigned    read_filter_mask = 0;
     int         origin_direct_buf[CHUNK_NX][CHUNK_NY];
     int         direct_buf[CHUNK_NX][CHUNK_NY];
     int         check_chunk[CHUNK_NX][CHUNK_NY];
@@ -618,10 +808,10 @@ test_skip_compress_write2(hid_t file)
 
     /* Register and enable first bogus filter */
     if(H5Zregister (H5Z_BOGUS1) < 0) 
-	goto error;
+        goto error;
 
     if(H5Pset_filter(cparms, H5Z_FILTER_BOGUS1, 0, (size_t)0, NULL) < 0) 
-	goto error;
+        goto error;
 
     /* Enable compression filter */
     if((status = H5Pset_deflate( cparms, (unsigned) aggression)) < 0)
@@ -629,10 +819,10 @@ test_skip_compress_write2(hid_t file)
 
     /* Register and enable second bogus filter */
     if(H5Zregister (H5Z_BOGUS2) < 0) 
-	goto error;
+        goto error;
 
     if(H5Pset_filter(cparms, H5Z_FILTER_BOGUS2, 0, (size_t)0, NULL) < 0) 
-	goto error;
+        goto error;
 
     /*
      * Create a new dataset within the file using cparms
@@ -648,9 +838,9 @@ test_skip_compress_write2(hid_t file)
     /* 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;
-    }
+            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 */ 
@@ -672,6 +862,35 @@ 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)
+        goto error;
+
+    if(read_filter_mask != filter_mask) {
+        HDfprintf(stderr, "    Read/write filter mask not the same.");
+        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]);
+                goto error;
+            }
+        }
+    }
+
+    /* Clear the buffer */
+    HDmemset(check_chunk, 0, buf_size);
+
     /*
      * Select hyperslab for one chunk in the file
      */
@@ -682,7 +901,7 @@ test_skip_compress_write2(hid_t file)
     if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
         goto error;
 
-    /* Read the chunk back */
+    /* Use H5Dread() to read the chunk back */
     if((status = H5Dread(dataset, H5T_NATIVE_INT, mem_space, dataspace, H5P_DEFAULT, check_chunk)) < 0)
         goto error;
 
@@ -725,11 +944,10 @@ error:
 /*-------------------------------------------------------------------------
  * Function:	test_data_conv
  *
- * Purpose:	Test data conversion
- *
- * Return:	Success:	0
+ * Purpose:	    Test data conversion
  *
- *		Failure:	1
+ * Return:	    Success:	0
+ *		        Failure:	1
  *
  * Programmer:  Raymond Lu	
  *              30 November 2012
@@ -740,10 +958,10 @@ static int
 test_data_conv(hid_t file)
 {
     typedef struct {
-	int a, b, c[4], d, e;
+        int a, b, c[4], d, e;
     } src_type_t;
     typedef struct {
-	int a,    c[4],    e;
+        int a,    c[4],    e;
     } dst_type_t;
 
     hid_t       dataspace = -1, dataset = -1;
@@ -761,6 +979,8 @@ test_data_conv(hid_t file)
     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 H5DOread_chunk */
+
     hsize_t     offset[2] = {0, 0};
     size_t      buf_size = CHUNK_NX*CHUNK_NY*sizeof(src_type_t);
 
@@ -769,7 +989,7 @@ test_data_conv(hid_t file)
     hsize_t count[2];  /* Block count */
     hsize_t block[2];  /* Block sizes */
 
-    TESTING("data conversion for H5DOwrite_chunk");
+    TESTING("data conversion for H5DOwrite_chunk/H5DOread_chunk");
 
     /*
      * Create the data space with unlimited dimensions.
@@ -854,6 +1074,36 @@ test_data_conv(hid_t file)
     if((dataset = H5Dopen2(file, DATASETNAME4, H5P_DEFAULT)) < 0)
         goto error;
 
+    /* Use H5DOread_chunk() to read the uncompressed data */
+    if((status = H5DOread_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) {
+                    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, 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
      */
@@ -879,14 +1129,14 @@ test_data_conv(hid_t file)
 	        (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",
+                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",
+                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);
 
-	    goto error;
+                goto error;
             }
         }
     }
@@ -923,11 +1173,10 @@ error:
 /*-------------------------------------------------------------------------
  * Function:	test_invalid_parameters
  *
- * Purpose:	Test invalid parameters for H5DOwrite_chunk
- *
- * Return:	Success:	0
+ * Purpose:	    Test invalid parameters for H5DOwrite_chunk and H5DOread_chunk
  *
- *		Failure:	1
+ * Return:	    Success:	0
+ *		        Failure:	1
  *
  * Programmer:  Raymond Lu	
  *              30 November 2012
@@ -951,7 +1200,9 @@ test_invalid_parameters(hid_t file)
     size_t      buf_size = CHUNK_NX*CHUNK_NY*sizeof(int);
     int         aggression = 9;     /* Compression aggression setting */
 
-    TESTING("invalid parameters for H5DOwrite_chunk");
+    hsize_t     chunk_nbytes;       /* Chunk size */
+
+    TESTING("invalid parameters for H5DOwrite_chunk/H5DOread_chunk");
 
     /*
      * Create the data space with unlimited dimensions.
@@ -969,7 +1220,7 @@ test_invalid_parameters(hid_t file)
         goto error;
 
     /*
-     * Create a new contiguous dataset to verify H5DOwrite_chunk doesn't work
+     * Create a new contiguous dataset to verify H5DOwrite_chunk/H5DOread_chunk doesn't work
      */
     if((dataset = H5Dcreate2(file, DATASETNAME5, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
 			cparms, H5P_DEFAULT)) < 0)
@@ -981,8 +1232,8 @@ test_invalid_parameters(hid_t file)
     /* 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++;
+        }
 
     /* Try to write the chunk data to contiguous dataset.  It should fail */
     offset[0] = CHUNK_NX;
@@ -993,6 +1244,18 @@ test_invalid_parameters(hid_t file)
             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 H5DOread_chunk from the contiguous dataset.  It should fail */
+    H5E_BEGIN_TRY {
+        if((status = H5DOread_chunk(dataset, dxpl, offset, &filter_mask, direct_buf)) != FAIL)
+            goto error;
+    } H5E_END_TRY;
+
     if(H5Dclose(dataset) < 0)
         goto error;
 
@@ -1011,25 +1274,40 @@ test_invalid_parameters(hid_t file)
 			cparms, H5P_DEFAULT)) < 0)
         goto error;
 
-    /* Check invalid dataset ID */ 
+    /* 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;
     } H5E_END_TRY;
 
-    /* Check invalid DXPL ID */
+    H5E_BEGIN_TRY {
+        if((status = H5DOread_chunk((hid_t)-1, dxpl, offset, &filter_mask, direct_buf)) != FAIL)
+            goto error;
+    } H5E_END_TRY;
+
+    /* Check invalid DXPL ID for H5DOwrite_chunk and H5DOread_chunk */
     H5E_BEGIN_TRY {
         if((status = H5DOwrite_chunk(dataset, (hid_t)-1, filter_mask, offset, buf_size, direct_buf)) != FAIL)
             goto error;
     } H5E_END_TRY;
 
-    /* Check invalid OFFSET */
+    H5E_BEGIN_TRY {
+        if((status = H5DOread_chunk(dataset, (hid_t)-1, offset, &filter_mask, direct_buf)) != FAIL)
+            goto error;
+    } H5E_END_TRY;
+
+    /* Check invalid OFFSET for H5DOwrite_chunk and H5DOread_chunk */
     H5E_BEGIN_TRY {
         if((status = H5DOwrite_chunk(dataset, dxpl, filter_mask, NULL, buf_size, direct_buf)) != FAIL)
             goto error;
     } H5E_END_TRY;
 
-    /* Check when OFFSET is out of dataset range */
+    H5E_BEGIN_TRY {
+        if((status = H5DOread_chunk(dataset, dxpl, NULL, &filter_mask, direct_buf)) != FAIL)
+            goto error;
+    } H5E_END_TRY;
+
+    /* Check when OFFSET is out of dataset range for H5DOwrite_chunk and H5DOread_chunk */
     offset[0] = NX + 1;
     offset[1] = NY;
     H5E_BEGIN_TRY {
@@ -1037,7 +1315,12 @@ test_invalid_parameters(hid_t file)
             goto error;
     } H5E_END_TRY;
 
-    /* Check when OFFSET is not on chunk boundary */
+    H5E_BEGIN_TRY {
+        if((status = H5DOread_chunk(dataset, dxpl, offset, &filter_mask, direct_buf)) != FAIL)
+            goto error;
+    } H5E_END_TRY;
+
+    /* Check when OFFSET is not on chunk boundary for H5DOwrite_chunk and H5DOread_chunk */
     offset[0] = CHUNK_NX;
     offset[1] = CHUNK_NY + 1;
     H5E_BEGIN_TRY {
@@ -1045,7 +1328,12 @@ test_invalid_parameters(hid_t file)
             goto error;
     } H5E_END_TRY;
 
-    /* Check invalid buffer size */
+    H5E_BEGIN_TRY {
+        if((status = H5DOread_chunk(dataset, dxpl, offset, &filter_mask, direct_buf)) != FAIL)
+            goto error;
+    } H5E_END_TRY;
+
+    /* Check invalid buffer size for H5DOwrite_chunk only */
     offset[0] = CHUNK_NX;
     offset[1] = CHUNK_NY;
     buf_size = 0; 
@@ -1054,13 +1342,18 @@ test_invalid_parameters(hid_t file)
             goto error;
     } H5E_END_TRY;
 
-    /* Check invalid data buffer */
+    /* Check invalid data buffer for H5DOwrite_chunk and H5DOread_chunk */
     buf_size = CHUNK_NX*CHUNK_NY*sizeof(int);
     H5E_BEGIN_TRY {
         if((status = H5DOwrite_chunk(dataset, dxpl, filter_mask, offset, buf_size, NULL)) != FAIL)
             goto error;
     } H5E_END_TRY;
 
+    H5E_BEGIN_TRY {
+        if((status = H5DOread_chunk(dataset, dxpl, offset, &filter_mask, NULL)) != FAIL)
+            goto error;
+    } H5E_END_TRY;
+
     if(H5Dclose(dataset) < 0)
         goto error;
 
@@ -1090,11 +1383,11 @@ error:
 /*-------------------------------------------------------------------------
  * Function:	Main function
  *
- * Purpose:	Test direct chunk write function H5DOwrite_chunk
- *
- * Return:	Success:	0
+ * Purpose:	    Test direct chunk write function H5DOwrite_chunk and
+ *              chunk direct read function H5DOread_chunk
  *
- *		Failure:	1
+ * Return:	    Success:	0
+ *		        Failure:	1
  *
  * Programmer:  Raymond Lu	
  *              30 November 2012
@@ -1112,7 +1405,7 @@ int main( void )
     if((file_id = H5Fcreate(FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT)) < 0)
         goto error;
 
-    /* Test direct chunk write */
+    /* 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 */