summaryrefslogtreecommitdiffstats
path: root/java/examples/datasets/H5Ex_D_Chunk.java
diff options
context:
space:
mode:
authorAllen Byrne <byrn@hdfgroup.org>2016-02-29 02:43:00 (GMT)
committerAllen Byrne <byrn@hdfgroup.org>2016-02-29 02:43:00 (GMT)
commit63249be0e10a8726acb5a7cf64491319eaa46227 (patch)
treeebb2b75ece8852e8a58804631c0004f06a9bba9f /java/examples/datasets/H5Ex_D_Chunk.java
parenta1617b7cdbe14173fcf690b4627059fa4528c19b (diff)
downloadhdf5-63249be0e10a8726acb5a7cf64491319eaa46227.zip
hdf5-63249be0e10a8726acb5a7cf64491319eaa46227.tar.gz
hdf5-63249be0e10a8726acb5a7cf64491319eaa46227.tar.bz2
[svn-r29226] HDFFV-9552: merge in java code.
Diffstat (limited to 'java/examples/datasets/H5Ex_D_Chunk.java')
-rw-r--r--java/examples/datasets/H5Ex_D_Chunk.java366
1 files changed, 366 insertions, 0 deletions
diff --git a/java/examples/datasets/H5Ex_D_Chunk.java b/java/examples/datasets/H5Ex_D_Chunk.java
new file mode 100644
index 0000000..7f02e5a
--- /dev/null
+++ b/java/examples/datasets/H5Ex_D_Chunk.java
@@ -0,0 +1,366 @@
+/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
+ * 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 files COPYING and Copyright.html. COPYING can be found at the root *
+ * of the source code distribution tree; Copyright.html can be found at the *
+ * root level of an installed copy of the electronic HDF5 document set and *
+ * is linked from the top-level documents page. It can also be found at *
+ * http://hdfgroup.org/HDF5/doc/Copyright.html. If you do not have *
+ * access to either file, you may request a copy from help@hdfgroup.org. *
+ * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
+
+/************************************************************
+ This example shows how to create a chunked dataset. The
+ program first writes integers in a hyperslab selection to
+ a chunked dataset with dataspace dimensions of DIM_XxDIM_Y
+ and chunk size of CHUNK_XxCHUNK_Y, then closes the file.
+ Next, it reopens the file, reads back the data, and
+ outputs it to the screen. Finally it reads the data again
+ using a different hyperslab selection, and outputs
+ the result to the screen.
+ ************************************************************/
+package examples.datasets;
+
+import java.util.EnumSet;
+import java.util.HashMap;
+import java.util.Map;
+
+import hdf.hdf5lib.H5;
+import hdf.hdf5lib.HDF5Constants;
+
+public class H5Ex_D_Chunk {
+ private static String FILENAME = "H5Ex_D_Chunk.h5";
+ private static String DATASETNAME = "DS1";
+ private static final int DIM_X = 6;
+ private static final int DIM_Y = 8;
+ private static final int CHUNK_X = 4;
+ private static final int CHUNK_Y = 4;
+ private static final int RANK = 2;
+ private static final int NDIMS = 2;
+
+ // Values for the status of space allocation
+ enum H5D_layout {
+ H5D_LAYOUT_ERROR(-1), H5D_COMPACT(0), H5D_CONTIGUOUS(1), H5D_CHUNKED(2), H5D_NLAYOUTS(3);
+ private static final Map<Integer, H5D_layout> lookup = new HashMap<Integer, H5D_layout>();
+
+ static {
+ for (H5D_layout s : EnumSet.allOf(H5D_layout.class))
+ lookup.put(s.getCode(), s);
+ }
+
+ private int code;
+
+ H5D_layout(int layout_type) {
+ this.code = layout_type;
+ }
+
+ public int getCode() {
+ return this.code;
+ }
+
+ public static H5D_layout get(int code) {
+ return lookup.get(code);
+ }
+ }
+
+ private static void writeChunk() {
+ long file_id = -1;
+ long filespace_id = -1;
+ long dataset_id = -1;
+ long dcpl_id = -1;
+ long[] dims = { DIM_X, DIM_Y };
+ long[] chunk_dims = { CHUNK_X, CHUNK_Y };
+ int[][] dset_data = new int[DIM_X][DIM_Y];
+
+ // Initialize data to "1", to make it easier to see the selections.
+ for (int indx = 0; indx < DIM_X; indx++)
+ for (int jndx = 0; jndx < DIM_Y; jndx++)
+ dset_data[indx][jndx] = 1;
+
+ // Print the data to the screen.
+ System.out.println("Original Data:");
+ for (int indx = 0; indx < DIM_X; indx++) {
+ System.out.print(" [ ");
+ for (int jndx = 0; jndx < DIM_Y; jndx++)
+ System.out.print(dset_data[indx][jndx] + " ");
+ System.out.println("]");
+ }
+ System.out.println();
+
+ // Create a new file using default properties.
+ try {
+ file_id = H5.H5Fcreate(FILENAME, HDF5Constants.H5F_ACC_TRUNC, HDF5Constants.H5P_DEFAULT,
+ HDF5Constants.H5P_DEFAULT);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Create dataspace. Setting maximum size to NULL sets the maximum
+ // size to be the current size.
+ try {
+ filespace_id = H5.H5Screate_simple(RANK, dims, null);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Create the dataset creation property list.
+ try {
+ dcpl_id = H5.H5Pcreate(HDF5Constants.H5P_DATASET_CREATE);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Set the chunk size.
+ try {
+ if (dcpl_id >= 0)
+ H5.H5Pset_chunk(dcpl_id, NDIMS, chunk_dims);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Create the chunked dataset.
+ try {
+ if ((file_id >= 0) && (filespace_id >= 0) && (dcpl_id >= 0))
+ dataset_id = H5.H5Dcreate(file_id, DATASETNAME, HDF5Constants.H5T_STD_I32LE, filespace_id,
+ HDF5Constants.H5P_DEFAULT, dcpl_id, HDF5Constants.H5P_DEFAULT);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Define and select the first part of the hyperslab selection.
+ long[] start = { 0, 0 };
+ long[] stride = { 3, 3 };
+ long[] count = { 2, 3 };
+ long[] block = { 2, 2 };
+ try {
+ if ((filespace_id >= 0))
+ H5.H5Sselect_hyperslab(filespace_id, HDF5Constants.H5S_SELECT_SET, start, stride, count, block);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+ // Define and select the second part of the hyperslab selection,
+ // which is subtracted from the first selection by the use of
+ // H5S_SELECT_NOTB
+ block[0] = 1;
+ block[1] = 1;
+ try {
+ if ((filespace_id >= 0)) {
+ H5.H5Sselect_hyperslab(filespace_id, HDF5Constants.H5S_SELECT_NOTB, start, stride, count, block);
+
+ // Write the data to the dataset.
+ if (dataset_id >= 0)
+ H5.H5Dwrite(dataset_id, HDF5Constants.H5T_NATIVE_INT, HDF5Constants.H5S_ALL, filespace_id,
+ HDF5Constants.H5P_DEFAULT, dset_data);
+ }
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // End access to the dataset and release resources used by it.
+ try {
+ if (dcpl_id >= 0)
+ H5.H5Pclose(dcpl_id);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ try {
+ if (dataset_id >= 0)
+ H5.H5Dclose(dataset_id);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ try {
+ if (filespace_id >= 0)
+ H5.H5Sclose(filespace_id);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Close the file.
+ try {
+ if (file_id >= 0)
+ H5.H5Fclose(file_id);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+ }
+
+ private static void readChunk() {
+ long file_id = -1;
+ long filespace_id = -1;
+ long dataset_id = -1;
+ long dcpl_id = -1;
+ int[][] dset_data = new int[DIM_X][DIM_Y];
+
+ // Open an existing file.
+ try {
+ file_id = H5.H5Fopen(FILENAME, HDF5Constants.H5F_ACC_RDONLY, HDF5Constants.H5P_DEFAULT);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Open an existing dataset.
+ try {
+ if (file_id >= 0)
+ dataset_id = H5.H5Dopen(file_id, DATASETNAME, HDF5Constants.H5P_DEFAULT);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Retrieve the dataset creation property list.
+ try {
+ if (dataset_id >= 0)
+ dcpl_id = H5.H5Dget_create_plist(dataset_id);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Print the storage layout.
+ try {
+ if (dcpl_id >= 0) {
+ int layout_type = H5.H5Pget_layout(dcpl_id);
+ System.out.print("Storage layout for " + DATASETNAME + " is: ");
+ switch (H5D_layout.get(layout_type)) {
+ case H5D_COMPACT:
+ System.out.println("H5D_COMPACT");
+ break;
+ case H5D_CONTIGUOUS:
+ System.out.println("H5D_CONTIGUOUS");
+ break;
+ case H5D_CHUNKED:
+ System.out.println("H5D_CHUNKED");
+ break;
+ case H5D_LAYOUT_ERROR:
+ break;
+ case H5D_NLAYOUTS:
+ break;
+ default:
+ break;
+ }
+ System.out.println();
+ }
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Read the data using the default properties.
+ try {
+ if (dataset_id >= 0)
+ H5.H5Dread(dataset_id, HDF5Constants.H5T_NATIVE_INT, HDF5Constants.H5S_ALL, HDF5Constants.H5S_ALL,
+ HDF5Constants.H5P_DEFAULT, dset_data);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Output the data to the screen.
+ System.out.println("Data as written to disk by hyberslabs:");
+ for (int indx = 0; indx < DIM_X; indx++) {
+ System.out.print(" [ ");
+ for (int jndx = 0; jndx < DIM_Y; jndx++)
+ System.out.print(dset_data[indx][jndx] + " ");
+ System.out.println("]");
+ }
+ System.out.println();
+
+ // Initialize the read array.
+ for (int indx = 0; indx < DIM_X; indx++)
+ for (int jndx = 0; jndx < DIM_Y; jndx++)
+ dset_data[indx][jndx] = 0;
+
+ // Define and select the hyperslab to use for reading.
+ try {
+ if (dataset_id >= 0) {
+ filespace_id = H5.H5Dget_space(dataset_id);
+
+ long[] start = { 0, 1 };
+ long[] stride = { 4, 4 };
+ long[] count = { 2, 2 };
+ long[] block = { 2, 3 };
+
+ if (filespace_id >= 0) {
+ H5.H5Sselect_hyperslab(filespace_id, HDF5Constants.H5S_SELECT_SET, start, stride, count, block);
+
+ // Read the data using the previously defined hyperslab.
+ if ((dataset_id >= 0) && (filespace_id >= 0))
+ H5.H5Dread(dataset_id, HDF5Constants.H5T_NATIVE_INT, HDF5Constants.H5S_ALL, filespace_id,
+ HDF5Constants.H5P_DEFAULT, dset_data);
+ }
+ }
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Output the data to the screen.
+ System.out.println("Data as read from disk by hyberslab:");
+ for (int indx = 0; indx < DIM_X; indx++) {
+ System.out.print(" [ ");
+ for (int jndx = 0; jndx < DIM_Y; jndx++)
+ System.out.print(dset_data[indx][jndx] + " ");
+ System.out.println("]");
+ }
+ System.out.println();
+
+ // End access to the dataset and release resources used by it.
+ try {
+ if (dcpl_id >= 0)
+ H5.H5Pclose(dcpl_id);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ try {
+ if (dataset_id >= 0)
+ H5.H5Dclose(dataset_id);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ try {
+ if (filespace_id >= 0)
+ H5.H5Sclose(filespace_id);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+
+ // Close the file.
+ try {
+ if (file_id >= 0)
+ H5.H5Fclose(file_id);
+ }
+ catch (Exception e) {
+ e.printStackTrace();
+ }
+ }
+
+ public static void main(String[] args) {
+ H5Ex_D_Chunk.writeChunk();
+ H5Ex_D_Chunk.readChunk();
+ }
+
+}