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379 lines
12 KiB
379 lines
12 KiB
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
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* Copyright by The HDF Group. *
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* All rights reserved. *
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* *
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* This file is part of HDF5. The full HDF5 copyright notice, including *
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* terms governing use, modification, and redistribution, is contained in *
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* the COPYING file, which can be found at the root of the source code *
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* distribution tree, or in https://www.hdfgroup.org/licenses. *
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* If you do not have access to either file, you may request a copy from *
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* help@hdfgroup.org. *
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* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
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/************************************************************
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This example shows how to create and extend an unlimited
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dataset. The program first writes integers to a dataset
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with dataspace dimensions of DIM_XxDIM_Y, then closes the
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file. Next, it reopens the file, reads back the data,
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outputs it to the screen, extends the dataset, and writes
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new data to the entire extended dataset. Finally it
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reopens the file again, reads back the data, and outputs it
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to the screen.
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************************************************************/
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package examples.datasets;
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import hdf.hdf5lib.H5;
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import hdf.hdf5lib.HDF5Constants;
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public class H5Ex_D_UnlimitedMod {
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private static String FILENAME = "H5Ex_D_UnlimitedMod.h5";
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private static String DATASETNAME = "DS1";
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private static final int DIM_X = 4;
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private static final int DIM_Y = 7;
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private static final int EDIM_X = 6;
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private static final int EDIM_Y = 10;
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private static final int CHUNK_X = 4;
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private static final int CHUNK_Y = 4;
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private static final int RANK = 2;
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private static final int NDIMS = 2;
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private static void writeUnlimited()
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{
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long file_id = HDF5Constants.H5I_INVALID_HID;
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long dcpl_id = HDF5Constants.H5I_INVALID_HID;
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long dataspace_id = HDF5Constants.H5I_INVALID_HID;
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long dataset_id = HDF5Constants.H5I_INVALID_HID;
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long[] dims = {DIM_X, DIM_Y};
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long[] chunk_dims = {CHUNK_X, CHUNK_Y};
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long[] maxdims = {HDF5Constants.H5S_UNLIMITED, HDF5Constants.H5S_UNLIMITED};
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int[][] dset_data = new int[DIM_X][DIM_Y];
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// Initialize the dataset.
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for (int indx = 0; indx < DIM_X; indx++)
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for (int jndx = 0; jndx < DIM_Y; jndx++)
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dset_data[indx][jndx] = indx * jndx - jndx;
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// Create a new file using default properties.
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try {
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file_id = H5.H5Fcreate(FILENAME, HDF5Constants.H5F_ACC_TRUNC, HDF5Constants.H5P_DEFAULT,
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HDF5Constants.H5P_DEFAULT);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Create dataspace with unlimited dimensions.
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try {
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dataspace_id = H5.H5Screate_simple(RANK, dims, maxdims);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Create the dataset creation property list.
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try {
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dcpl_id = H5.H5Pcreate(HDF5Constants.H5P_DATASET_CREATE);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Set the chunk size.
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try {
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if (dcpl_id >= 0)
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H5.H5Pset_chunk(dcpl_id, NDIMS, chunk_dims);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Create the unlimited dataset.
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try {
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if ((file_id >= 0) && (dataspace_id >= 0) && (dcpl_id >= 0))
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dataset_id = H5.H5Dcreate(file_id, DATASETNAME, HDF5Constants.H5T_STD_I32LE, dataspace_id,
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HDF5Constants.H5P_DEFAULT, dcpl_id, HDF5Constants.H5P_DEFAULT);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Write the data to the dataset.
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try {
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if (dataset_id >= 0)
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H5.H5Dwrite(dataset_id, HDF5Constants.H5T_NATIVE_INT, HDF5Constants.H5S_ALL,
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HDF5Constants.H5S_ALL, HDF5Constants.H5P_DEFAULT, dset_data);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// End access to the dataset and release resources used by it.
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try {
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if (dataset_id >= 0)
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H5.H5Dclose(dataset_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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try {
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if (dataspace_id >= 0)
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H5.H5Sclose(dataspace_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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try {
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if (dcpl_id >= 0)
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H5.H5Pclose(dcpl_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Close the file.
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try {
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if (file_id >= 0)
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H5.H5Fclose(file_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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}
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private static void extendUnlimited()
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{
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long file_id = HDF5Constants.H5I_INVALID_HID;
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long dataspace_id = HDF5Constants.H5I_INVALID_HID;
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long dataset_id = HDF5Constants.H5I_INVALID_HID;
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long[] dims = {DIM_X, DIM_Y};
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long[] extdims = {EDIM_X, EDIM_Y};
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int[][] dset_data;
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int[][] extend_dset_data = new int[EDIM_X][EDIM_Y];
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// Open an existing file.
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try {
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file_id = H5.H5Fopen(FILENAME, HDF5Constants.H5F_ACC_RDWR, HDF5Constants.H5P_DEFAULT);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Open an existing dataset.
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try {
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if (file_id >= 0)
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dataset_id = H5.H5Dopen(file_id, DATASETNAME, HDF5Constants.H5P_DEFAULT);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Get dataspace and allocate memory for read buffer. This is a
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// two dimensional dataset so the dynamic allocation must be done
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// in steps.
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try {
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if (dataset_id >= 0)
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dataspace_id = H5.H5Dget_space(dataset_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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try {
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if (dataspace_id >= 0)
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H5.H5Sget_simple_extent_dims(dataspace_id, dims, null);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Allocate array of pointers to rows.
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dset_data = new int[(int)dims[0]][(int)dims[1]];
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// Read the data using the default properties.
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try {
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if (dataset_id >= 0)
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H5.H5Dread(dataset_id, HDF5Constants.H5T_NATIVE_INT, HDF5Constants.H5S_ALL,
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HDF5Constants.H5S_ALL, HDF5Constants.H5P_DEFAULT, dset_data);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Output the data to the screen.
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System.out.println("Dataset before extension:");
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for (int indx = 0; indx < DIM_X; indx++) {
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System.out.print(" [ ");
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for (int jndx = 0; jndx < DIM_Y; jndx++)
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System.out.print(dset_data[indx][jndx] + " ");
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System.out.println("]");
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}
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System.out.println();
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try {
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if (dataspace_id >= 0)
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H5.H5Sclose(dataspace_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Extend the dataset.
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try {
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if (dataset_id >= 0)
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H5.H5Dset_extent(dataset_id, extdims);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Retrieve the dataspace for the newly extended dataset.
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try {
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if (dataset_id >= 0)
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dataspace_id = H5.H5Dget_space(dataset_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Initialize data for writing to the extended dataset.
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for (int indx = 0; indx < EDIM_X; indx++)
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for (int jndx = 0; jndx < EDIM_Y; jndx++)
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extend_dset_data[indx][jndx] = jndx;
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// Write the data tto the extended dataset.
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try {
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if ((dataspace_id >= 0) && (dataset_id >= 0))
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H5.H5Dwrite(dataset_id, HDF5Constants.H5T_NATIVE_INT, HDF5Constants.H5S_ALL, dataspace_id,
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HDF5Constants.H5P_DEFAULT, extend_dset_data);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// End access to the dataset and release resources used by it.
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try {
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if (dataset_id >= 0)
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H5.H5Dclose(dataset_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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try {
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if (dataspace_id >= 0)
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H5.H5Sclose(dataspace_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Close the file.
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try {
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if (file_id >= 0)
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H5.H5Fclose(file_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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}
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private static void readUnlimited()
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{
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long file_id = HDF5Constants.H5I_INVALID_HID;
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long dataspace_id = HDF5Constants.H5I_INVALID_HID;
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long dataset_id = HDF5Constants.H5I_INVALID_HID;
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long[] dims = {DIM_X, DIM_Y};
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int[][] dset_data;
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// Open an existing file.
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try {
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file_id = H5.H5Fopen(FILENAME, HDF5Constants.H5F_ACC_RDONLY, HDF5Constants.H5P_DEFAULT);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Open an existing dataset.
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try {
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if (file_id >= 0)
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dataset_id = H5.H5Dopen(file_id, DATASETNAME, HDF5Constants.H5P_DEFAULT);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Get dataspace and allocate memory for the read buffer as before.
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try {
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if (dataset_id >= 0)
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dataspace_id = H5.H5Dget_space(dataset_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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try {
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if (dataspace_id >= 0)
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H5.H5Sget_simple_extent_dims(dataspace_id, dims, null);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Allocate array of pointers to rows.
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dset_data = new int[(int)dims[0]][(int)dims[1]];
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// Read the data using the default properties.
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try {
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if (dataset_id >= 0)
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H5.H5Dread(dataset_id, HDF5Constants.H5T_NATIVE_INT, HDF5Constants.H5S_ALL,
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HDF5Constants.H5S_ALL, HDF5Constants.H5P_DEFAULT, dset_data);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Output the data to the screen.
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System.out.println("Dataset after extension:");
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for (int indx = 0; indx < dims[0]; indx++) {
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System.out.print(" [ ");
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for (int jndx = 0; jndx < dims[1]; jndx++)
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System.out.print(dset_data[indx][jndx] + " ");
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System.out.println("]");
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}
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System.out.println();
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// End access to the dataset and release resources used by it.
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try {
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if (dataset_id >= 0)
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H5.H5Dclose(dataset_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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try {
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if (dataspace_id >= 0)
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H5.H5Sclose(dataspace_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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// Close the file.
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try {
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if (file_id >= 0)
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H5.H5Fclose(file_id);
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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}
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public static void main(String[] args)
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{
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H5Ex_D_UnlimitedMod.writeUnlimited();
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H5Ex_D_UnlimitedMod.extendUnlimited();
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H5Ex_D_UnlimitedMod.readUnlimited();
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}
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}
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