/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * 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.assertFalse; import static org.junit.Assert.assertTrue; import static org.junit.Assert.fail; 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.Rule; import org.junit.Test; import org.junit.rules.TestName; public class TestH5S { @Rule public TestName testname = new TestName(); long H5sid = HDF5Constants.H5I_INVALID_HID; int H5rank = 2; long H5dims[] = {5, 5}; long H5maxdims[] = {10, 10}; @Before public void createH5file() throws NullPointerException, HDF5Exception { assertTrue("H5 open ids is 0", H5.getOpenIDCount() == 0); System.out.print(testname.getMethodName()); H5sid = H5.H5Screate_simple(H5rank, H5dims, H5maxdims); assertTrue("H5.H5Screate_simple_extent", H5sid > 0); } @After public void deleteH5file() throws HDF5LibraryException { if (H5sid > 0) { try { H5.H5Sclose(H5sid); } catch (Exception ex) { } } System.out.println(); } @Test public void testH5Sget_simple_extent_ndims() { int read_rank = -1; try { read_rank = H5.H5Sget_simple_extent_ndims(H5sid); assertTrue("H5.H5Sget_simple_extent_ndims", H5rank == read_rank); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_simple_extent_ndims: " + err); } } @Test public void testH5Sget_simple_extent_dims_null() { int read_rank = -1; try { read_rank = H5.H5Sget_simple_extent_dims(H5sid, null, null); assertTrue("H5.H5Sget_simple_extent_dims", H5rank == read_rank); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_simple_extent_dims: " + err); } } @Test public void testH5Sget_simple_extent_dims() { int read_rank = -1; long dims[] = {5, 5}; long maxdims[] = {10, 10}; try { read_rank = H5.H5Sget_simple_extent_dims(H5sid, dims, maxdims); assertTrue("H5.H5Sget_simple_extent_dims", H5rank == read_rank); assertTrue("H5.H5Sget_simple_extent_dims:dims", H5dims[0] == dims[0]); assertTrue("H5.H5Sget_simple_extent_dims:maxdims", H5maxdims[0] == maxdims[0]); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_simple_extent_dims: " + err); } } @Test public void testH5Sget_simple_extent_npoints() { long num_elements = -1; try { num_elements = H5.H5Sget_simple_extent_npoints(H5sid); assertTrue("H5.H5Sget_simple_extent_npoints", (H5dims[0] * H5dims[1]) == num_elements); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_simple_extent_npoints: " + err); } } @Test public void testH5Sget_simple_extent_type() { int read_type = -1; try { read_type = H5.H5Sget_simple_extent_type(H5sid); assertTrue("H5.H5Sget_simple_extent_type", HDF5Constants.H5S_SIMPLE == read_type); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_simple_extent_type: " + err); } } @Test public void testH5Sis_simple() { boolean result = false; try { result = H5.H5Sis_simple(H5sid); assertTrue("H5.H5Sis_simple", result); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sis_simple: " + err); } } @Test public void testH5Sset_extent_simple() { long num_elements = -1; try { H5.H5Sset_extent_simple(H5sid, H5rank, H5maxdims, H5maxdims); num_elements = H5.H5Sget_simple_extent_npoints(H5sid); assertTrue("H5.H5Sget_simple_extent_npoints", (H5maxdims[0] * H5maxdims[1]) == num_elements); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sset_extent_simple: " + err); } } @Test public void testH5Sget_select_type() { int read_type = -1; try { read_type = H5.H5Sget_select_type(H5sid); assertTrue("H5.H5Sget_select_type", HDF5Constants.H5S_SEL_ALL == read_type); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sset_extent_none: " + err); } } @Test public void testH5Sset_extent_none() { int read_type = -1; try { H5.H5Sset_extent_none(H5sid); read_type = H5.H5Sget_simple_extent_type(H5sid); assertTrue("H5.H5Sget_simple_extent_type: " + read_type, HDF5Constants.H5S_NULL == read_type); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sset_extent_none: " + err); } } @Test public void testH5Scopy() { long sid = HDF5Constants.H5I_INVALID_HID; int read_rank = -1; try { sid = H5.H5Scopy(H5sid); assertTrue("H5.H5Sis_simple", sid > 0); read_rank = H5.H5Sget_simple_extent_ndims(sid); assertTrue("H5.H5Screate_simple_extent_ndims", H5rank == read_rank); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Scopy: " + err); } finally { try { H5.H5Sclose(sid); } catch (Exception ex) { } } } @Test public void testH5Sextent_copy() { long sid = HDF5Constants.H5I_INVALID_HID; int class_type = -1; try { sid = H5.H5Screate(HDF5Constants.H5S_NULL); assertTrue("H5.H5Screate_null", sid > 0); H5.H5Sextent_copy(sid, H5sid); class_type = H5.H5Sget_simple_extent_type(sid); assertTrue("H5.H5Screate_null: type", class_type == HDF5Constants.H5S_SIMPLE); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sextent_copy: " + err); } finally { try { H5.H5Sclose(sid); } catch (Exception ex) { } } } @Test public void testH5Sextent_equal() { long sid = HDF5Constants.H5I_INVALID_HID; boolean result = false; try { sid = H5.H5Screate(HDF5Constants.H5S_NULL); assertTrue("H5.H5Screate_null", sid > 0); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Screate: null " + err); } try { result = H5.H5Sextent_equal(sid, H5sid); assertFalse("H5.testH5Sextent_equal", result); H5.H5Sextent_copy(sid, H5sid); result = H5.H5Sextent_equal(sid, H5sid); assertTrue("H5.testH5Sextent_equal", result); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sextent_copy " + err); } finally { try { H5.H5Sclose(sid); } catch (Exception ex) { } } } @Test public void testH5Sencode_decode_null_dataspace() { long sid = HDF5Constants.H5I_INVALID_HID; long decoded_sid = HDF5Constants.H5I_INVALID_HID; byte[] null_sbuf = null; boolean result = false; try { sid = H5.H5Screate(HDF5Constants.H5S_NULL); assertTrue("H5.H5Screate_null", sid > 0); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Screate: null " + err); } try { null_sbuf = H5.H5Sencode(sid); assertFalse("H5.testH5Sencode", null_sbuf == null); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sencode " + err); } finally { if (null_sbuf == null) { try { H5.H5Sclose(sid); } catch (Exception ex) { } } } try { decoded_sid = H5.H5Sdecode(null_sbuf); assertTrue("H5.testH5Sdecode", decoded_sid > 0); result = H5.H5Sextent_equal(sid, decoded_sid); assertTrue("H5.testH5Sextent_equal", result); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sdecode " + err); } finally { try { H5.H5Sclose(decoded_sid); } catch (Exception ex) { } try { H5.H5Sclose(sid); } catch (Exception ex) { } } } @Test public void testH5Sencode_decode_scalar_dataspace() { long sid = HDF5Constants.H5I_INVALID_HID; long decoded_sid = HDF5Constants.H5I_INVALID_HID; byte[] scalar_sbuf = null; boolean result = false; int iresult = -1; long lresult = -1; try { sid = H5.H5Screate(HDF5Constants.H5S_SCALAR); assertTrue("H5.H5Screate_null", sid > 0); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Screate: null " + err); } try { scalar_sbuf = H5.H5Sencode(sid); assertFalse("H5.testH5Sencode", scalar_sbuf == null); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sencode " + err); } finally { if (scalar_sbuf == null) { try { H5.H5Sclose(sid); } catch (Exception ex) { } } } try { decoded_sid = H5.H5Sdecode(scalar_sbuf); assertTrue("H5.testH5Sdecode", decoded_sid > 0); result = H5.H5Sextent_equal(sid, decoded_sid); assertTrue("H5.testH5Sextent_equal", result); /* Verify decoded dataspace */ lresult = H5.H5Sget_simple_extent_npoints(decoded_sid); assertTrue("H5.testH5Sget_simple_extent_npoints", lresult == 1); iresult = H5.H5Sget_simple_extent_ndims(decoded_sid); assertTrue("H5.testH5Sget_simple_extent_ndims", iresult == 0); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sdecode " + err); } finally { try { H5.H5Sclose(decoded_sid); } catch (Exception ex) { } try { H5.H5Sclose(sid); } catch (Exception ex) { } } } @Test public void testH5Sselect_none() { int read_type = -1; try { H5.H5Sselect_none(H5sid); read_type = H5.H5Sget_select_type(H5sid); assertTrue("H5.H5Sget_select_type: " + read_type, HDF5Constants.H5S_SEL_NONE == read_type); H5.H5Sselect_all(H5sid); read_type = H5.H5Sget_select_type(H5sid); assertTrue("H5.H5Sget_select_type: " + read_type, HDF5Constants.H5S_SEL_ALL == read_type); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sset_extent_none: " + err); } } @Test public void testH5Sget_select_npoints() { long coord[][] = {{0, 1}, {2, 4}, {5, 6}}; /* Coordinates for point selection */ long num_elements = -1; try { H5.H5Sselect_elements(H5sid, HDF5Constants.H5S_SELECT_SET, 3, coord); num_elements = H5.H5Sget_select_npoints(H5sid); assertTrue("H5.H5Sget_select_npoints: " + num_elements, 3 == num_elements); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_select_npoints: " + err); } } @Test(expected = IllegalArgumentException.class) public void testH5Sget_select_elem_pointlist_invalid() throws Throwable { long coord[][] = {{0, 1}, {2, 4}, {5, 6}}; /* Coordinates for point selection */ long getcoord[] = {-1, -1}; /* Coordinates for get point selection */ try { H5.H5Sselect_elements(H5sid, HDF5Constants.H5S_SELECT_SET, 3, coord); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_select_elem_pointlist: " + err); } H5.H5Sget_select_elem_pointlist(H5sid, 0, 3, getcoord); } @Test public void testH5Sget_select_elem_pointlist() { long coord[][] = {{0, 1}, {2, 3}, {4, 5}}; /* Coordinates for point selection */ long getcoord[] = {-1, -1, -1, -1, -1, -1}; /* Coordinates for get point selection */ try { H5.H5Sselect_elements(H5sid, HDF5Constants.H5S_SELECT_SET, 3, coord); H5.H5Sget_select_elem_pointlist(H5sid, 0, 3, getcoord); assertTrue("H5.H5Sget_select_elem_pointlist", coord[0][0] == getcoord[0]); assertTrue("H5.H5Sget_select_elem_pointlist", coord[0][1] == getcoord[1]); assertTrue("H5.H5Sget_select_elem_pointlist", coord[1][0] == getcoord[2]); assertTrue("H5.H5Sget_select_elem_pointlist", coord[1][1] == getcoord[3]); assertTrue("H5.H5Sget_select_elem_pointlist", coord[2][0] == getcoord[4]); assertTrue("H5.H5Sget_select_elem_pointlist", coord[2][1] == getcoord[5]); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_select_elem_pointlist: " + err); } } @Test public void testH5Sget_select_bounds() { long lowbounds[] = {-1, -1}; long hibounds[] = {-1, -1}; try { H5.H5Sget_select_bounds(H5sid, lowbounds, hibounds); assertTrue("H5.H5Sget_select_bounds", 0 == lowbounds[0]); assertTrue("H5.H5Sget_select_bounds", 0 == lowbounds[1]); assertTrue("H5.H5Sget_select_bounds", (H5dims[0] - 1) == hibounds[0]); assertTrue("H5.H5Sget_select_bounds", (H5dims[1] - 1) == hibounds[1]); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_select_bounds: " + err); } } @Test public void testH5Soffset_simple() { long coord[][] = {{2, 2}, {2, 4}, {4, 2}, {4, 4}}; /* Coordinates for point selection */ long lowbounds[] = {-1, -1}; long hibounds[] = {-1, -1}; try { H5.H5Sselect_elements(H5sid, HDF5Constants.H5S_SELECT_SET, 4, coord); H5.H5Sget_select_bounds(H5sid, lowbounds, hibounds); assertTrue("H5.H5Sget_select_bounds", 2 == lowbounds[0]); assertTrue("H5.H5Sget_select_bounds", 2 == lowbounds[1]); assertTrue("H5.H5Sget_select_bounds", (H5dims[0] - 1) == hibounds[0]); assertTrue("H5.H5Sget_select_bounds", (H5dims[1] - 1) == hibounds[1]); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_select_bounds: " + err); } try { long offset[] = {-1, -1}; H5.H5Soffset_simple(H5sid, offset); H5.H5Sget_select_bounds(H5sid, lowbounds, hibounds); assertTrue("H5.H5Sget_select_bounds", 1 == lowbounds[0]); assertTrue("H5.H5Sget_select_bounds", 1 == lowbounds[1]); assertTrue("H5.H5Sget_select_bounds", (H5dims[0] - 2) == hibounds[0]); assertTrue("H5.H5Sget_select_bounds", (H5dims[1] - 2) == hibounds[1]); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Soffset_simple: " + err); } } @Test public void testH5Sget_select_hyper() { long space1 = HDF5Constants.H5I_INVALID_HID; long start[] = {0, 0}; long stride[] = {1, 1}; long count[] = {1, 1}; long block[] = {4, 4}; long nblocks; // Number of hyperslab blocks long blocks[] = {-1, -1, -1, -1, -1, -1, -1, -1}; // List of blocks try { // Copy "all" selection & space space1 = H5.H5Scopy(H5sid); assertTrue("H5.H5Scopy", H5sid > 0); // 'AND' "all" selection with another hyperslab H5.H5Sselect_hyperslab(space1, HDF5Constants.H5S_SELECT_AND, start, stride, count, block); // Verify that there is only one block nblocks = H5.H5Sget_select_hyper_nblocks(space1); assertTrue("H5Sget_select_hyper_nblocks", nblocks == 1); // Retrieve the block defined H5.H5Sget_select_hyper_blocklist(space1, 0, nblocks, blocks); // Verify that the correct block is defined assertTrue("H5.H5Sget_select_hyper_blocklist", start[0] == blocks[0]); assertTrue("H5.H5Sget_select_hyper_blocklist", start[1] == blocks[1]); assertTrue("H5.H5Sget_select_hyper_blocklist", (block[0] - 1) == blocks[2]); assertTrue("H5.H5Sget_select_hyper_blocklist", (block[1] - 1) == blocks[3]); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Sget_select_bounds: " + err); } finally { try { H5.H5Sclose(space1); } catch (Exception ex) { } } } @Test public void testH5Sget_select_valid() { long space1 = HDF5Constants.H5I_INVALID_HID; long start[] = {1, 0}; long stride[] = {1, 1}; long count[] = {2, 3}; long block[] = {1, 1}; long offset[] = {0, 0}; // Offset of selection try { // Copy "all" selection & space space1 = H5.H5Scopy(H5sid); assertTrue("H5.H5Scopy", H5sid > 0); // 'AND' "all" selection with another hyperslab H5.H5Sselect_hyperslab(space1, HDF5Constants.H5S_SELECT_SET, start, stride, count, block); // Check a valid offset offset[0] = -1; offset[1] = 0; H5.H5Soffset_simple(space1, offset); assertTrue("H5Sselect_valid", H5.H5Sselect_valid(space1)); // Check an invalid offset offset[0] = 10; offset[1] = 0; H5.H5Soffset_simple(space1, offset); assertFalse("H5Sselect_valid", H5.H5Sselect_valid(space1)); /* Reset offset */ offset[0] = 0; offset[1] = 0; H5.H5Soffset_simple(space1, offset); assertTrue("H5Sselect_valid", H5.H5Sselect_valid(space1)); } catch (Throwable err) { err.printStackTrace(); fail("testH5Sget_select_valid: " + err); } finally { try { H5.H5Sclose(space1); } catch (Exception ex) { } } } @Test public void testH5Shyper_regular() { long start[] = {1, 0}; long stride[] = {1, 1}; long count[] = {2, 3}; long block[] = {1, 1}; 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 { // Set "regular" hyperslab selection H5.H5Sselect_hyperslab(H5sid, HDF5Constants.H5S_SELECT_SET, start, stride, count, block); // Query if 'hyperslab' selection is regular hyperslab (should be TRUE) is_regular = H5.H5Sis_regular_hyperslab(H5sid); assertTrue("H5.H5Sis_regular_hyperslab", is_regular); // Retrieve the hyperslab parameters H5.H5Sget_regular_hyperslab(H5sid, q_start, q_stride, q_count, q_block); /* Verify the hyperslab parameters */ for (int u = 0; u < H5rank; 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]); } /* end for */ } catch (Throwable err) { err.printStackTrace(); fail("testH5Sget_select_valid: " + err); } } }