/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * Copyright by The HDF Group. * * All rights reserved. * * * * This file is part of HDF5. The full HDF5 copyright notice, including * * terms governing use, modification, and redistribution, is contained in * * the COPYING file, which can be found at the root of the source code * * distribution tree, or in https://www.hdfgroup.org/licenses. * * If you do not have access to either file, you may request a copy from * * help@hdfgroup.org. * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ package test; import static org.junit.Assert.assertEquals; import static org.junit.Assert.assertFalse; import static org.junit.Assert.assertTrue; import static org.junit.Assert.fail; import java.io.File; import hdf.hdf5lib.H5; import hdf.hdf5lib.HDF5Constants; import hdf.hdf5lib.exceptions.HDF5Exception; import hdf.hdf5lib.exceptions.HDF5LibraryException; import org.junit.After; import org.junit.Before; import org.junit.Ignore; import org.junit.Rule; import org.junit.Test; import org.junit.rules.TestName; public class TestH5Pvirtual { @Rule public TestName testname = new TestName(); private static final String H5_FILE = "vds.h5"; private static final String SRC_FILE[] = {"v-0.h5", "v-1.h5", "v-2.h5"}; private static final String SRC_DATASET[] = {"A", "B", "C"}; private static final int DIM_Y = 6; private static final int VDSDIM_X = 4; private static final int VDSDIM_Y = 6; private static final int fill_value = -1; long[] H5dims = {DIM_Y}; long[] VDSH5dims = {VDSDIM_X, VDSDIM_Y}; long H5fid = HDF5Constants.H5I_INVALID_HID; long H5dsid = HDF5Constants.H5I_INVALID_HID; long H5dssid = HDF5Constants.H5I_INVALID_HID; long H5dvsid = HDF5Constants.H5I_INVALID_HID; long H5did = HDF5Constants.H5I_INVALID_HID; long H5dcplid = HDF5Constants.H5I_INVALID_HID; long H5dapl_id = HDF5Constants.H5I_INVALID_HID; private final void _deleteFile(String filename) { File file = new File(filename); if (file.exists()) { try { file.delete(); } catch (SecurityException e) { } } } private final long _createDataset(long fid, long dsid, String name, long dcpl, long dapl) { long did = HDF5Constants.H5I_INVALID_HID; long space_id = HDF5Constants.H5I_INVALID_HID; long[] start = {0, 0}; long[] stride = null; long[] count = {1, 1}; long[] block = {1, VDSDIM_Y}; try { H5dssid = H5.H5Screate_simple(1, H5dims, null); for (int i = 0; i < 3; i++) { start[0] = i; /* Select i-th row in the virtual dataset; selection in the source datasets is the same. */ H5.H5Sselect_hyperslab(dsid, HDF5Constants.H5S_SELECT_SET, start, stride, count, block); H5.H5Pset_virtual(dcpl, dsid, SRC_FILE[i], SRC_DATASET[i], H5dssid); } did = H5.H5Dcreate(fid, name, HDF5Constants.H5T_NATIVE_INT, dsid, HDF5Constants.H5P_DEFAULT, dcpl, dapl); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Dcreate: " + err); } assertTrue("TestH5Pvirtual._createDataset: ", did > 0); return did; } private final void _createH5File(long fcpl, long fapl) { int[] dset_data = new int[DIM_Y]; // Create source files and datasets for (int i = 0; i < 3; i++) { long space_id = HDF5Constants.H5I_INVALID_HID; long dset_id = HDF5Constants.H5I_INVALID_HID; long file_id = HDF5Constants.H5I_INVALID_HID; for (int j = 0; j < DIM_Y; j++) dset_data[j] = i + 1; try { file_id = H5.H5Fcreate(SRC_FILE[i], HDF5Constants.H5F_ACC_TRUNC, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); space_id = H5.H5Screate_simple(1, H5dims, null); dset_id = H5.H5Dcreate(file_id, SRC_DATASET[i], HDF5Constants.H5T_NATIVE_INT, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); H5.H5Dwrite(dset_id, HDF5Constants.H5T_NATIVE_INT, HDF5Constants.H5S_ALL, HDF5Constants.H5S_ALL, HDF5Constants.H5P_DEFAULT, dset_data); } catch (Throwable err) { err.printStackTrace(); fail("TestH5Pvirtual.createH5file: " + err); } finally { if (dset_id > 0) try { H5.H5Dclose(dset_id); } catch (Exception ex) { } if (space_id > 0) try { H5.H5Sclose(space_id); } catch (Exception ex) { } if (file_id > 0) try { H5.H5Fclose(file_id); } catch (Exception ex) { } } } try { int[] fill_value = {-1}; H5fid = H5.H5Fcreate(H5_FILE, HDF5Constants.H5F_ACC_TRUNC, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); H5dsid = H5.H5Screate_simple(2, VDSH5dims, null); H5dcplid = H5.H5Pcreate(HDF5Constants.H5P_DATASET_CREATE); H5.H5Pset_fill_value(H5dcplid, HDF5Constants.H5T_NATIVE_INT, fill_value); } catch (Throwable err) { err.printStackTrace(); fail("TestH5Pvirtual.createH5file: " + err); } assertTrue("TestH5Pvirtual.createH5file: H5.H5Fcreate: ", H5fid > 0); assertTrue("TestH5Pvirtual.createH5file: H5.H5Screate_simple: ", H5dsid > 0); assertTrue("TestH5Pvirtual.createH5file: H5.H5Pcreate: ", H5dcplid > 0); try { H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); } catch (Throwable err) { err.printStackTrace(); } } @Before public void createH5file() throws NullPointerException, HDF5Exception { assertTrue("H5 open ids is 0", H5.getOpenIDCount() == 0); System.out.print(testname.getMethodName()); _createH5File(HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); H5dapl_id = H5.H5Pcreate(HDF5Constants.H5P_DATASET_ACCESS); assertTrue("TestH5Pvirtual.createH5file: H5.H5Pcreate: ", H5dapl_id > 0); } @After public void deleteH5file() throws HDF5LibraryException { if (H5dapl_id > 0) try { H5.H5Pclose(H5dapl_id); } catch (Exception ex) { } if (H5dcplid > 0) try { H5.H5Pclose(H5dcplid); } catch (Exception ex) { } if (H5dsid > 0) try { H5.H5Sclose(H5dsid); } catch (Exception ex) { } if (H5fid > 0) try { H5.H5Fclose(H5fid); } catch (Exception ex) { } for (int i = 0; i < 3; i++) { _deleteFile(SRC_FILE[i]); } _deleteFile(H5_FILE); System.out.println(); } @Test public void testH5Pvirtual_storage() { int layout = -1; H5did = _createDataset(H5fid, H5dsid, "VDS", H5dcplid, H5dapl_id); try { layout = H5.H5Pget_layout(H5dcplid); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Pget_layout: " + err); } finally { if (H5dssid > 0) try { H5.H5Sclose(H5dssid); } catch (Exception ex) { } if (H5did > 0) try { H5.H5Dclose(H5did); } catch (Exception ex) { } } assertTrue("testH5Pvirtual_storage", HDF5Constants.H5D_VIRTUAL == layout); } @Test public void testH5Pget_virtual_count() { long num_map = -1; H5did = _createDataset(H5fid, H5dsid, "VDS", H5dcplid, H5dapl_id); try { num_map = H5.H5Pget_virtual_count(H5dcplid); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Pget_virtual_count: " + err); } finally { if (H5dssid > 0) try { H5.H5Sclose(H5dssid); } catch (Exception ex) { } if (H5did > 0) try { H5.H5Dclose(H5did); } catch (Exception ex) { } } assertTrue("testH5Pget_virtual_count: " + num_map, num_map >= 0); assertEquals(3, num_map); } @Test public void testH5Pget_source_filename() throws Throwable { String filename = null; H5did = _createDataset(H5fid, H5dsid, "VDS", H5dcplid, H5dapl_id); try { filename = (H5.H5Pget_virtual_filename(H5dcplid, 2)); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Pget_virtual_filename: " + err); } finally { if (H5dssid > 0) try { H5.H5Sclose(H5dssid); } catch (Exception ex) { } if (H5did > 0) try { H5.H5Dclose(H5did); } catch (Exception ex) { } } assertTrue("testH5Pget_source_filename: " + filename, filename.compareTo("v-2.h5") == 0); } @Test public void testH5Pget_source_datasetname() throws Throwable { String datasetname = null; H5did = _createDataset(H5fid, H5dsid, "VDS", H5dcplid, H5dapl_id); try { datasetname = H5.H5Pget_virtual_dsetname(H5dcplid, 1); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Pget_virtual_dsetname: " + err); } finally { if (H5dssid > 0) try { H5.H5Sclose(H5dssid); } catch (Exception ex) { } if (H5did > 0) try { H5.H5Dclose(H5did); } catch (Exception ex) { } } assertTrue("testH5Pget_source_datasetname: " + datasetname, datasetname.compareTo("B") == 0); } @Test public void testH5Pget_selection_source_dataset() throws Throwable { long src_space = HDF5Constants.H5I_INVALID_HID; long src_selection = -1; H5did = _createDataset(H5fid, H5dsid, "VDS", H5dcplid, H5dapl_id); try { src_space = H5.H5Pget_virtual_srcspace(H5dcplid, 0); src_selection = H5.H5Sget_select_type(src_space); } catch (Throwable err) { err.printStackTrace(); fail("testH5Pget_selection_source_dataset: " + err); } finally { if (src_space > 0) try { H5.H5Sclose(src_space); } catch (Exception ex) { } if (H5dssid > 0) try { H5.H5Sclose(H5dssid); } catch (Exception ex) { } if (H5did > 0) try { H5.H5Dclose(H5did); } catch (Exception ex) { } } assertTrue("testH5Pget_selection_source_dataset", src_selection == HDF5Constants.H5S_SEL_ALL); } @Test public void testH5Pget_mapping_parameters() { long num_map = -1; H5did = _createDataset(H5fid, H5dsid, "VDS", H5dcplid, H5dapl_id); try { try { num_map = H5.H5Pget_virtual_count(H5dcplid); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Pget_virtual_count: " + err); } for (int i = 0; i < num_map; i++) { int vselection = -1; long vspace = -1; long nblocks; // Number of hyperslab blocks long blocks[] = {-1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1}; // List of blocks long[] start = {i, 0}; long[] stride = {1, 1}; long[] count = {1, 1}; long[] block = {1, VDSDIM_Y}; long q_start[] = new long[2]; long q_stride[] = new long[2]; long q_count[] = new long[2]; long q_block[] = new long[2]; boolean is_regular = false; try { try { vspace = H5.H5Pget_virtual_vspace(H5dcplid, i); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Pget_virtual_vspace: " + err); } try { vselection = H5.H5Sget_select_type(vspace); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_select_type: " + err); } assertTrue("testH5Pget_mapping_parameters[" + i + "]", vselection == HDF5Constants.H5S_SEL_HYPERSLABS); // Verify that there is only one block nblocks = H5.H5Sget_select_hyper_nblocks(vspace); assertTrue("H5Sget_select_hyper_nblocks", nblocks == 1); // Retrieve the block defined H5.H5Sget_select_hyper_blocklist(vspace, 0, nblocks, blocks); // Verify that the correct block is defined assertTrue("H5.H5Sget_select_hyper_blocklist[" + i + "] [0]: " + blocks[0], start[0] == blocks[0]); assertTrue("H5.H5Sget_select_hyper_blocklist[" + i + "] [1]: " + blocks[1], start[1] == blocks[1]); assertTrue("H5.H5Sget_select_hyper_blocklist[" + i + "] [2]: " + blocks[2], (block[0] - 1 + i) == blocks[2]); assertTrue("H5.H5Sget_select_hyper_blocklist[" + i + "] [3]: " + blocks[3], (block[1] - 1) == blocks[3]); // We also can use new APIs to get start, stride, count and block is_regular = H5.H5Sis_regular_hyperslab(vspace); assertTrue("H5.H5Sis_regular_hyperslab", is_regular); H5.H5Sget_regular_hyperslab(vspace, q_start, q_stride, q_count, q_block); // Verify the hyperslab parameters for (int u = 0; u < 2; u++) { assertTrue("H5Sget_regular_hyperslab, start", start[u] == q_start[u]); assertTrue("H5Sget_regular_hyperslab, stride", stride[u] == q_stride[u]); assertTrue("H5Sget_regular_hyperslab, count", count[u] == q_count[u]); assertTrue("H5Sget_regular_hyperslab, block", block[u] == q_block[u]); } } catch (Throwable err) { err.printStackTrace(); fail("H5.testH5Pget_mapping_parameters: " + err); } finally { if (vspace > 0) try { H5.H5Sclose(vspace); } catch (Exception ex) { } } } } catch (Throwable err) { err.printStackTrace(); fail("testH5Pget_mapping_parameters: " + err); } finally { if (H5dssid > 0) try { H5.H5Sclose(H5dssid); } catch (Exception ex) { } if (H5did > 0) try { H5.H5Dclose(H5did); } catch (Exception ex) { } } } @Test public void testH5Pset_get_virtual_view() { int ret_val = -1; H5did = _createDataset(H5fid, H5dsid, "VDS", H5dcplid, H5dapl_id); try { ret_val = H5.H5Pget_virtual_view(H5dapl_id); assertTrue("H5Pget_virtual_view", ret_val >= 0); assertEquals(HDF5Constants.H5D_VDS_LAST_AVAILABLE, ret_val); H5.H5Pset_virtual_view(H5dapl_id, HDF5Constants.H5D_VDS_FIRST_MISSING); ret_val = H5.H5Pget_virtual_view(H5dapl_id); assertTrue("H5Pget_virtual_view", ret_val >= 0); assertEquals(HDF5Constants.H5D_VDS_FIRST_MISSING, ret_val); } catch (Throwable err) { err.printStackTrace(); fail("testH5Pset_get_virtual_view: " + err); } finally { if (H5dssid > 0) try { H5.H5Sclose(H5dssid); } catch (Exception ex) { } if (H5did > 0) try { H5.H5Dclose(H5did); } catch (Exception ex) { } } } @Test public void testH5Pset_get_virtual_printf_gap() { long ret_val = -1; H5did = _createDataset(H5fid, H5dsid, "VDS", H5dcplid, H5dapl_id); try { ret_val = H5.H5Pget_virtual_printf_gap(H5dapl_id); assertTrue("H5Pget_virtual_printf_gap", ret_val >= 0); assertEquals(0, ret_val); H5.H5Pset_virtual_printf_gap(H5dapl_id, 2); ret_val = H5.H5Pget_virtual_printf_gap(H5dapl_id); assertTrue("H5Pget_virtual_printf_gap", ret_val >= 0); assertEquals(2, ret_val); } catch (Throwable err) { err.printStackTrace(); fail("H5Pset_get_virtual_printf_gap: " + err); } finally { if (H5dssid > 0) try { H5.H5Sclose(H5dssid); } catch (Exception ex) { } if (H5did > 0) try { H5.H5Dclose(H5did); } catch (Exception ex) { } } } @Test public void testH5Pset_virtual_prefix() { String prefix = "tmp"; try { H5.H5Pset_virtual_prefix(H5dapl_id, prefix); } catch (Throwable err) { err.printStackTrace(); fail("H5Pset_virtual_prefix: " + err); } } @Test(expected = NullPointerException.class) public void testH5Pset_virtual_prefix_null() throws Throwable { H5.H5Pset_virtual_prefix(H5dapl_id, null); } @Test public void testH5Pget_virtual_prefix() { String prefix = "tmp"; String pre = ""; try { H5.H5Pset_virtual_prefix(H5dapl_id, prefix); pre = H5.H5Pget_virtual_prefix(H5dapl_id); } catch (Throwable err) { err.printStackTrace(); fail("H5Pget_virtual_prefix: " + err); } assertTrue("The prefix: ", prefix.equals(pre)); } }