/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * 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.assertNotNull; import static org.junit.Assert.assertTrue; import static org.junit.Assert.fail; import java.io.File; import java.util.ArrayList; import java.util.Arrays; import java.util.List; import hdf.hdf5lib.H5; import hdf.hdf5lib.HDF5Constants; import hdf.hdf5lib.callbacks.H5A_iterate_cb; import hdf.hdf5lib.callbacks.H5A_iterate_t; import hdf.hdf5lib.exceptions.HDF5Exception; import hdf.hdf5lib.exceptions.HDF5LibraryException; import hdf.hdf5lib.structs.H5A_info_t; 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 TestH5A { @Rule public TestName testname = new TestName(); private static final String H5_FILE = "testA.h5"; private static final int DIM_X = 4; private static final int DIM_Y = 6; long H5fid = HDF5Constants.H5I_INVALID_HID; long H5dsid = HDF5Constants.H5I_INVALID_HID; long H5atid = HDF5Constants.H5I_INVALID_HID; long H5did = HDF5Constants.H5I_INVALID_HID; long[] H5dims = {DIM_X, DIM_Y}; long type_id = HDF5Constants.H5I_INVALID_HID; long space_id = HDF5Constants.H5I_INVALID_HID; long lapl_id = HDF5Constants.H5I_INVALID_HID; long aapl_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 dapl) { long did = HDF5Constants.H5I_INVALID_HID; try { did = H5.H5Dcreate(fid, name, HDF5Constants.H5T_STD_I32BE, dsid, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, dapl); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Dcreate: " + err); } assertTrue("TestH5A._createDataset: ", did > 0); return did; } @Before public void createH5file() throws NullPointerException, HDF5Exception { assertTrue("H5 open ids is 0", H5.getOpenIDCount() == 0); System.out.print(testname.getMethodName()); try { H5fid = H5.H5Fcreate(H5_FILE, HDF5Constants.H5F_ACC_TRUNC, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); assertTrue("TestH5A.createH5file: H5.H5Fcreate: ", H5fid > 0); H5dsid = H5.H5Screate_simple(2, H5dims, null); assertTrue("TestH5A.createH5file: H5.H5Screate_simple: ", H5dsid > 0); H5did = _createDataset(H5fid, H5dsid, "dset", HDF5Constants.H5P_DEFAULT); assertTrue("TestH5A.createH5file: _createDataset: ", H5did > 0); space_id = H5.H5Screate(HDF5Constants.H5S_NULL); assertTrue(space_id > 0); lapl_id = H5.H5Pcreate(HDF5Constants.H5P_LINK_ACCESS); assertTrue(lapl_id > 0); aapl_id = H5.H5Pcreate(HDF5Constants.H5P_ATTRIBUTE_ACCESS); assertTrue(aapl_id > 0); type_id = H5.H5Tenum_create(HDF5Constants.H5T_STD_I32LE); assertTrue(type_id > 0); int status = H5.H5Tenum_insert(type_id, "test", 1); assertTrue(status >= 0); } catch (Throwable err) { err.printStackTrace(); fail("TestH5A.createH5file: " + err); } H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); } @After public void deleteH5file() throws HDF5LibraryException { if (H5dsid > 0) try { H5.H5Sclose(H5dsid); } catch (Exception ex) { } if (H5did > 0) try { H5.H5Dclose(H5did); } catch (Exception ex) { } if (H5fid > 0) try { H5.H5Fclose(H5fid); } catch (Exception ex) { } if (H5atid > 0) try { H5.H5Tclose(H5atid); } catch (Exception ex) { } if (type_id > 0) try { H5.H5Tclose(type_id); } catch (Exception ex) { } if (space_id > 0) try { H5.H5Sclose(space_id); } catch (Exception ex) { } if (lapl_id > 0) try { H5.H5Pclose(lapl_id); } catch (Exception ex) { } if (aapl_id > 0) try { H5.H5Pclose(aapl_id); } catch (Exception ex) { } _deleteFile(H5_FILE); System.out.println(); } @Test public void testH5Acreate2() { long attr_id = HDF5Constants.H5I_INVALID_HID; try { attr_id = H5.H5Acreate(H5did, "dset", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); assertTrue("testH5Acreate2", attr_id >= 0); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Acreate2: " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } } } @Test(expected = HDF5LibraryException.class) public void testH5Acreate2_invalidobject() throws Throwable { H5.H5Acreate(H5dsid, "dset", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); } @Test(expected = NullPointerException.class) public void testH5Acreate2_nullname() throws Throwable { H5.H5Acreate(H5did, null, type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); } @Test public void testH5Aopen() { String attr_name = "dset"; long attribute_id = HDF5Constants.H5I_INVALID_HID; long attr_id = HDF5Constants.H5I_INVALID_HID; try { attr_id = H5.H5Acreate(H5did, attr_name, type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); // Opening the existing attribute, attr_name(Created by H5ACreate2) // attached to an object identifier. attribute_id = H5.H5Aopen(H5did, attr_name, HDF5Constants.H5P_DEFAULT); assertTrue("testH5Aopen: H5Aopen", attribute_id >= 0); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aopen: " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } if (attribute_id > 0) try { H5.H5Aclose(attribute_id); } catch (Exception ex) { } } } @Test(expected = HDF5LibraryException.class) public void testH5Aopen_invalidname() throws Throwable { H5.H5Aopen(H5did, "attr_name", HDF5Constants.H5P_DEFAULT); } @Test public void testH5Aopen_by_idx() { long loc_id = H5did; String obj_name = "."; int idx_type = HDF5Constants.H5_INDEX_CRT_ORDER; int order = HDF5Constants.H5_ITER_INC; long n = 0; long attr_id = HDF5Constants.H5I_INVALID_HID; long attribute_id = HDF5Constants.H5I_INVALID_HID; try { attr_id = H5.H5Acreate(H5did, "file", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); // Opening the existing attribute, obj_name(Created by H5ACreate2) // by index, attached to an object identifier. attribute_id = H5.H5Aopen_by_idx(H5did, ".", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 0, aapl_id, lapl_id); assertTrue("testH5Aopen_by_idx: H5Aopen_by_idx", attribute_id >= 0); // Negative test- Error should be thrown when H5Aopen_by_idx is // called // with n=5 and we do not have 5 attributes created. try { n = 5; H5.H5Aopen_by_idx(loc_id, obj_name, idx_type, order, n, aapl_id, lapl_id); fail("Negative Test Failed:- Error not Thrown when n is invalid."); } catch (AssertionError err) { fail("H5.H5Aopen_by_idx: " + err); } catch (HDF5LibraryException err) { } // Negative test- Error should be thrown when H5Aopen_by_idx is // called // with an invalid object name(which hasn't been created). try { n = 0; obj_name = "file"; H5.H5Aopen_by_idx(loc_id, obj_name, idx_type, order, n, aapl_id, lapl_id); fail("Negative Test Failed:- Error not Thrown when attribute name is invalid."); } catch (AssertionError err) { fail("H5.H5Aopen_by_idx: " + err); } catch (HDF5LibraryException err) { } } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aopen_by_idx: " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } if (attribute_id > 0) try { H5.H5Aclose(attribute_id); } catch (Exception ex) { } } } @Test public void testH5Acreate_by_name() { String obj_name = "."; String attr_name = "DATASET"; long attribute_id = HDF5Constants.H5I_INVALID_HID; boolean bool_val = false; try { attribute_id = H5.H5Acreate_by_name(H5fid, obj_name, attr_name, type_id, space_id, HDF5Constants.H5P_DEFAULT, aapl_id, lapl_id); assertTrue("testH5Acreate_by_name: H5Acreate_by_name", attribute_id >= 0); // Check if the name of attribute attached to the object specified // by loc_id and obj_name exists.It should be true. bool_val = H5.H5Aexists_by_name(H5fid, obj_name, attr_name, lapl_id); assertTrue("testH5Acreate_by_name: H5Aexists_by_name", bool_val == true); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Acreate_by_name " + err); } finally { if (attribute_id > 0) try { H5.H5Aclose(attribute_id); } catch (Exception ex) { } } } @Test public void testH5Arename() throws Throwable, HDF5LibraryException, NullPointerException { long loc_id = H5fid; String old_attr_name = "old"; String new_attr_name = "new"; long attr_id = HDF5Constants.H5I_INVALID_HID; int ret_val = -1; boolean bool_val = false; try { attr_id = H5.H5Acreate(loc_id, old_attr_name, type_id, space_id, HDF5Constants.H5P_DEFAULT, aapl_id); ret_val = H5.H5Arename(loc_id, old_attr_name, new_attr_name); // Check the return value.It should be non negative. assertTrue("testH5Arename: H5Arename", ret_val >= 0); // Check if the new name of attribute attached to the object // specified by loc_id and obj_name exists.It should be true. bool_val = H5.H5Aexists(loc_id, new_attr_name); assertTrue("testH5Arename: H5Aexists", bool_val == true); // Check if the old name of attribute attached to the object // specified by loc_id and obj_name exists. It should equal false. bool_val = H5.H5Aexists(loc_id, old_attr_name); assertEquals(bool_val, false); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Arename " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } } } @Test public void testH5Arename_by_name() { long loc_id = H5fid; String obj_name = "."; String old_attr_name = "old"; String new_attr_name = "new"; long attr_id = HDF5Constants.H5I_INVALID_HID; int ret_val = -1; boolean bool_val = false; try { attr_id = H5.H5Acreate_by_name(loc_id, obj_name, old_attr_name, type_id, space_id, HDF5Constants.H5P_DEFAULT, aapl_id, lapl_id); ret_val = H5.H5Arename_by_name(loc_id, obj_name, old_attr_name, new_attr_name, lapl_id); // Check the return value.It should be non negative. assertTrue("testH5Arename_by_name: H5Arename_by_name", ret_val >= 0); // Check if the new name of attribute attached to the object // specified by loc_id and obj_name exists.It should be true. bool_val = H5.H5Aexists_by_name(loc_id, obj_name, new_attr_name, lapl_id); assertTrue("testH5Arename_by_name: H5Aexists_by_name", bool_val == true); // Check if the old name of attribute attached to the object // specified by loc_id and obj_name exists. It should equal false. bool_val = H5.H5Aexists_by_name(loc_id, obj_name, old_attr_name, lapl_id); assertEquals(bool_val, false); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Arename_by_name " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } } } @Test public void testH5Aget_name() { String obj_name = "."; String attr_name = "DATASET1"; String ret_name = null; long attribute_id = HDF5Constants.H5I_INVALID_HID; try { attribute_id = H5.H5Acreate_by_name(H5fid, obj_name, attr_name, type_id, space_id, HDF5Constants.H5P_DEFAULT, aapl_id, lapl_id); assertTrue("testH5Aget_name: H5Acreate_by_name ", attribute_id > 0); ret_name = H5.H5Aget_name(attribute_id); assertEquals(ret_name, attr_name); } catch (Throwable err) { err.printStackTrace(); fail("testH5Aget_name " + err); } finally { if (attribute_id > 0) try { H5.H5Aclose(attribute_id); } catch (Exception ex) { } } } @Test public void testH5Aget_name_by_idx() { long loc_id = H5fid; String obj_name = "."; String attr_name = "DATASET1", attr2_name = "DATASET2"; String ret_name = null; int idx_type = HDF5Constants.H5_INDEX_NAME; int order = HDF5Constants.H5_ITER_INC; int n = 0; long attr1_id = HDF5Constants.H5I_INVALID_HID; long attr2_id = HDF5Constants.H5I_INVALID_HID; try { attr1_id = H5.H5Acreate_by_name(loc_id, obj_name, attr_name, type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr2_id = H5.H5Acreate_by_name(loc_id, obj_name, attr2_name, type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); // getting the 1st attribute name(n=0). ret_name = H5.H5Aget_name_by_idx(loc_id, obj_name, idx_type, order, n, lapl_id); assertFalse("H5Aget_name_by_idx ", ret_name == null); assertEquals(ret_name, attr_name); // getting the second attribute name(n=1) ret_name = H5.H5Aget_name_by_idx(loc_id, obj_name, idx_type, order, 1, lapl_id); assertFalse("H5Aget_name_by_idx ", ret_name == null); assertEquals(ret_name, attr2_name); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aget_name_by_idx " + err); } finally { if (attr1_id > 0) try { H5.H5Aclose(attr1_id); } catch (Exception ex) { } if (attr2_id > 0) try { H5.H5Aclose(attr2_id); } catch (Exception ex) { } } } @Test public void testH5Aget_storage_size() { long attr_id = HDF5Constants.H5I_INVALID_HID; long attr_size = HDF5Constants.H5I_INVALID_HID; try { attr_id = H5.H5Acreate(H5did, "dset", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); attr_size = H5.H5Aget_storage_size(attr_id); assertTrue("The size of attribute is :", attr_size == 0); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aget_storage_size: " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } } } @Test public void testH5Aget_info() { H5A_info_t attr_info = null; long attribute_id = HDF5Constants.H5I_INVALID_HID; long attr_id = HDF5Constants.H5I_INVALID_HID; try { attr_id = H5.H5Acreate(H5did, "dset", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); attribute_id = H5.H5Aopen(H5did, "dset", HDF5Constants.H5P_DEFAULT); // Calling H5Aget_info with attribute_id returned from H5Aopen. attr_info = H5.H5Aget_info(attribute_id); assertFalse("H5Aget_info ", attr_info == null); assertTrue("Corder_Valid should be false", attr_info.corder_valid == false); assertTrue("Character set used for attribute name", attr_info.cset == HDF5Constants.H5T_CSET_ASCII); assertTrue("Corder ", attr_info.corder == 0); assertEquals(attr_info.data_size, H5.H5Aget_storage_size(attr_id)); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aget_info: " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } if (attribute_id > 0) try { H5.H5Aclose(attribute_id); } catch (Exception ex) { } } } @Test public void testH5Aget_info1() { H5A_info_t attr_info = null; long attribute_id = HDF5Constants.H5I_INVALID_HID; long attr_id = HDF5Constants.H5I_INVALID_HID; int order = HDF5Constants.H5_ITER_INC; try { attr_id = H5.H5Acreate(H5did, ".", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); attribute_id = H5.H5Aopen_by_idx(H5did, ".", HDF5Constants.H5_INDEX_CRT_ORDER, order, 0, HDF5Constants.H5P_DEFAULT, lapl_id); // Calling H5Aget_info with attribute_id returned from // H5Aopen_by_idx. attr_info = H5.H5Aget_info(attribute_id); assertFalse("H5Aget_info ", attr_info == null); assertTrue("Corder_Valid should be true", attr_info.corder_valid == true); assertTrue("Character set", attr_info.cset == HDF5Constants.H5T_CSET_ASCII); assertTrue("Corder ", attr_info.corder == 0); assertEquals(attr_info.data_size, H5.H5Aget_storage_size(attr_id)); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aget_info1: " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } if (attribute_id > 0) try { H5.H5Aclose(attribute_id); } catch (Exception ex) { } } } @Test public void testH5Aget_info_by_idx() { long attr_id = HDF5Constants.H5I_INVALID_HID; long attr2_id = HDF5Constants.H5I_INVALID_HID; ; H5A_info_t attr_info = null; try { attr_id = H5.H5Acreate(H5did, "dset1", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); attr2_id = H5.H5Acreate(H5did, "dataset2", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); // Verify info for 1st attribute, in increasing creation order attr_info = H5.H5Aget_info_by_idx(H5did, ".", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 0, lapl_id); assertNotNull(attr_info); assertTrue("Corder ", attr_info.corder == 0); // should equal 0 as this is the order of 1st attribute created. assertEquals(attr_info.data_size, H5.H5Aget_storage_size(attr_id)); // Verify info for 2nd attribute, in increasing creation order attr_info = H5.H5Aget_info_by_idx(H5did, ".", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 1, lapl_id); assertNotNull(attr_info); assertTrue("Corder", attr_info.corder == 1); assertEquals(attr_info.data_size, H5.H5Aget_storage_size(attr2_id)); // verify info for 2nd attribute, in decreasing creation order attr_info = H5.H5Aget_info_by_idx(H5did, ".", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_DEC, 0, lapl_id); assertNotNull(attr_info); assertTrue("Corder", attr_info.corder == 1); // should equal 1 as this is the order of 2nd attribute created. // verify info for 1st attribute, in decreasing creation order attr_info = H5.H5Aget_info_by_idx(H5did, ".", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_DEC, 1, lapl_id); assertNotNull(attr_info); assertTrue("Corder", attr_info.corder == 0); // should equal 0 as this is the order of 1st attribute created. // verify info for 1st attribute, in increasing name order attr_info = H5.H5Aget_info_by_idx(H5did, ".", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_INC, 1, lapl_id); assertNotNull(attr_info); assertTrue("Corder", attr_info.corder == 0); // should equal 0 as this is the order of 1st attribute created. // verify info for 2nd attribute, in decreasing name order attr_info = H5.H5Aget_info_by_idx(H5did, ".", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_DEC, 1, lapl_id); assertNotNull(attr_info); assertTrue("Corder", attr_info.corder == 1); // should equal 1 as this is the order of 2nd attribute created. } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aget_info_by_idx:" + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } if (attr2_id > 0) try { H5.H5Aclose(attr2_id); } catch (Exception ex) { } } } @Test public void testH5Aget_info_by_name() { long attr_id = HDF5Constants.H5I_INVALID_HID; H5A_info_t attr_info = null; String obj_name = "."; String attr_name = "DATASET"; try { attr_id = H5.H5Acreate_by_name(H5fid, obj_name, attr_name, type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr_info = H5.H5Aget_info_by_name(H5fid, obj_name, attr_name, lapl_id); assertNotNull(attr_info); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aget_info_by_name:" + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } } } @Test public void testH5Adelete_by_name() { long attr_id = HDF5Constants.H5I_INVALID_HID; int ret_val = -1; boolean bool_val = false; boolean exists = false; try { attr_id = H5.H5Acreate_by_name(H5fid, ".", "DATASET", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); ret_val = H5.H5Adelete_by_name(H5fid, ".", "DATASET", lapl_id); assertTrue("H5Adelete_by_name", ret_val >= 0); // Check if the Attribute still exists. bool_val = H5.H5Aexists_by_name(H5fid, ".", "DATASET", lapl_id); assertFalse("testH5Adelete_by_name: H5Aexists_by_name", bool_val); exists = H5.H5Aexists(H5fid, "DATASET"); assertFalse("testH5Adelete_by_name: H5Aexists ", exists); // Negative test. Error thrown when we try to delete an attribute // that has already been deleted. try { ret_val = H5.H5Adelete_by_name(H5fid, ".", "DATASET", lapl_id); fail("Negative Test Failed: Error Not thrown."); } catch (AssertionError err) { fail("H5.H5Adelete_by_name: " + err); } catch (HDF5LibraryException err) { } } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Adelete_by_name " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } } } @Test public void testH5Aexists() { boolean exists = false; long attr_id = HDF5Constants.H5I_INVALID_HID; long attribute_id = HDF5Constants.H5I_INVALID_HID; try { exists = H5.H5Aexists(H5fid, "None"); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aexists: " + err); } assertFalse("H5Aexists ", exists); try { attr_id = H5.H5Acreate(H5fid, "dset", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); exists = H5.H5Aexists(H5fid, "dset"); assertTrue("H5Aexists ", exists); attribute_id = H5.H5Acreate_by_name(H5fid, ".", "attribute", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); exists = H5.H5Aexists(H5fid, "attribute"); assertTrue("H5Aexists ", exists); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aexists: " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } if (attribute_id > 0) try { H5.H5Aclose(attribute_id); } catch (Exception ex) { } } } @Test public void testH5Adelete_by_idx_order() { boolean exists = false; long attr1_id = HDF5Constants.H5I_INVALID_HID; long attr2_id = HDF5Constants.H5I_INVALID_HID; long attr3_id = HDF5Constants.H5I_INVALID_HID; long attr4_id = HDF5Constants.H5I_INVALID_HID; try { attr1_id = H5.H5Acreate_by_name(H5fid, ".", "attribute1", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr2_id = H5.H5Acreate_by_name(H5fid, ".", "attribute2", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr3_id = H5.H5Acreate_by_name(H5fid, ".", "attribute3", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr4_id = H5.H5Acreate_by_name(H5fid, ".", "attribute4", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); H5.H5Adelete_by_idx(H5fid, ".", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 3, lapl_id); exists = H5.H5Aexists(H5fid, "attribute4"); assertFalse("H5Adelete_by_idx: H5Aexists", exists); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Adelete_by_idx: " + err); } finally { if (attr1_id > 0) try { H5.H5Aclose(attr1_id); } catch (Exception ex) { } if (attr2_id > 0) try { H5.H5Aclose(attr2_id); } catch (Exception ex) { } if (attr3_id > 0) try { H5.H5Aclose(attr3_id); } catch (Exception ex) { } if (attr4_id > 0) try { H5.H5Aclose(attr4_id); } catch (Exception ex) { } } } @Test public void testH5Adelete_by_idx_name1() { boolean exists = false; long attr1_id = HDF5Constants.H5I_INVALID_HID; long attr2_id = HDF5Constants.H5I_INVALID_HID; long attr3_id = HDF5Constants.H5I_INVALID_HID; try { attr1_id = H5.H5Acreate_by_name(H5fid, ".", "attribute1", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr2_id = H5.H5Acreate_by_name(H5fid, ".", "attribute2", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr3_id = H5.H5Acreate_by_name(H5fid, ".", "attribute3", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); H5.H5Adelete_by_idx(H5fid, ".", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_INC, 2, lapl_id); exists = H5.H5Aexists(H5fid, "attribute3"); assertFalse("H5Adelete_by_idx: H5Aexists", exists); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Adelete_by_idx: " + err); } finally { if (attr1_id > 0) try { H5.H5Aclose(attr1_id); } catch (Exception ex) { } if (attr2_id > 0) try { H5.H5Aclose(attr2_id); } catch (Exception ex) { } if (attr3_id > 0) try { H5.H5Aclose(attr3_id); } catch (Exception ex) { } } } @Test public void testH5Adelete_by_idx_name2() { boolean exists = false; long attr1_id = HDF5Constants.H5I_INVALID_HID; long attr2_id = HDF5Constants.H5I_INVALID_HID; long attr3_id = HDF5Constants.H5I_INVALID_HID; long attr4_id = HDF5Constants.H5I_INVALID_HID; try { attr1_id = H5.H5Acreate_by_name(H5fid, ".", "attribute1", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr2_id = H5.H5Acreate_by_name(H5fid, ".", "attribute2", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr3_id = H5.H5Acreate_by_name(H5fid, ".", "attribute3", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr4_id = H5.H5Acreate_by_name(H5fid, ".", "attribute4", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); H5.H5Adelete_by_idx(H5fid, ".", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_DEC, 3, lapl_id); exists = H5.H5Aexists(H5fid, "attribute1"); assertFalse("H5Adelete_by_idx: H5Aexists", exists); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Adelete_by_idx: " + err); } finally { if (attr1_id > 0) try { H5.H5Aclose(attr1_id); } catch (Exception ex) { } if (attr2_id > 0) try { H5.H5Aclose(attr2_id); } catch (Exception ex) { } if (attr3_id > 0) try { H5.H5Aclose(attr3_id); } catch (Exception ex) { } if (attr4_id > 0) try { H5.H5Aclose(attr4_id); } catch (Exception ex) { } } } @Test(expected = NullPointerException.class) public void testH5Adelete_by_idx_null() throws Throwable { H5.H5Adelete_by_idx(H5fid, null, HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 0, lapl_id); } @Test(expected = HDF5LibraryException.class) public void testH5Adelete_by_idx_invalidobject() throws Throwable { H5.H5Adelete_by_idx(H5fid, "invalid", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 0, lapl_id); } @Test public void testH5Aopen_by_name() { String obj_name = "."; String attr_name = "DATASET"; long attribute_id = HDF5Constants.H5I_INVALID_HID; long aid = HDF5Constants.H5I_INVALID_HID; try { attribute_id = H5.H5Acreate_by_name(H5fid, obj_name, attr_name, type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); // open Attribute by name if (attribute_id >= 0) { try { aid = H5.H5Aopen_by_name(H5fid, obj_name, attr_name, HDF5Constants.H5P_DEFAULT, lapl_id); assertTrue("testH5Aopen_by_name: ", aid >= 0); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aopen_by_name " + err); } } } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aopen_by_name " + err); } finally { if (aid > 0) try { H5.H5Aclose(aid); } catch (Exception ex) { } if (attribute_id > 0) try { H5.H5Aclose(attribute_id); } catch (Exception ex) { } } } @Test public void testH5Awrite_readVL() { String attr_name = "VLdata"; long attr_id = HDF5Constants.H5I_INVALID_HID; long atype_id = HDF5Constants.H5I_INVALID_HID; long aspace_id = HDF5Constants.H5I_INVALID_HID; String[] str_data = {"Parting", "is such", "sweet", "sorrow."}; long[] dims = {str_data.length}; long lsize = 1; try { atype_id = H5.H5Tcopy(HDF5Constants.H5T_C_S1); assertTrue("testH5Awrite_readVL.H5Tcopy: ", atype_id >= 0); H5.H5Tset_size(atype_id, HDF5Constants.H5T_VARIABLE); assertTrue("testH5Awrite_readVL.H5Tis_variable_str", H5.H5Tis_variable_str(atype_id)); } catch (Exception err) { if (atype_id > 0) try { H5.H5Tclose(atype_id); } catch (Exception ex) { } err.printStackTrace(); fail("H5.testH5Awrite_readVL: " + err); } try { aspace_id = H5.H5Screate_simple(1, dims, null); assertTrue(aspace_id > 0); attr_id = H5.H5Acreate(H5did, attr_name, atype_id, aspace_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); assertTrue("testH5Awrite_readVL: ", attr_id >= 0); H5.H5AwriteVL(attr_id, atype_id, str_data); H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); for (int j = 0; j < dims.length; j++) { lsize *= dims[j]; } String[] strs = new String[(int)lsize]; for (int j = 0; j < lsize; j++) { strs[j] = ""; } try { H5.H5AreadVL(attr_id, atype_id, strs); } catch (Exception ex) { ex.printStackTrace(); } assertTrue("testH5Awrite_readVL:", str_data[0].equals(strs[0])); assertTrue("testH5Awrite_readVL:", str_data[1].equals(strs[1])); assertTrue("testH5Awrite_readVL:", str_data[2].equals(strs[2])); assertTrue("testH5Awrite_readVL:", str_data[3].equals(strs[3])); } catch (Throwable err) { err.printStackTrace(); fail("H5.testH5Awrite_readVL: " + err); } finally { if (attr_id > 0) try { H5.H5Aclose(attr_id); } catch (Exception ex) { } if (aspace_id > 0) try { H5.H5Sclose(aspace_id); } catch (Exception ex) { } if (atype_id > 0) try { H5.H5Tclose(atype_id); } catch (Exception ex) { } } } @Test public void testH5Aget_create_plist() { String attr_name = "DATASET1"; int char_encoding = 0; long plist_id = HDF5Constants.H5I_INVALID_HID; long attribute_id = HDF5Constants.H5I_INVALID_HID; try { plist_id = H5.H5Pcreate(HDF5Constants.H5P_ATTRIBUTE_CREATE); assertTrue(plist_id > 0); } catch (Throwable err) { err.printStackTrace(); fail("testH5Aget_create_plist: H5Pcreate " + err); } try { // Get the character encoding and ensure that it is the default (ASCII) try { char_encoding = H5.H5Pget_char_encoding(plist_id); } catch (Throwable err) { err.printStackTrace(); fail("H5Pget_char_encoding: " + err); } assertTrue("testH5Aget_create_plist: get_char_encoding", char_encoding == HDF5Constants.H5T_CSET_ASCII); // Create an attribute for the dataset using the property list try { attribute_id = H5.H5Acreate(H5fid, attr_name, type_id, space_id, plist_id, HDF5Constants.H5P_DEFAULT); assertTrue("testH5Aget_create_plist: H5Acreate", attribute_id >= 0); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Acreate: " + err); } // Close the property list, and get the attribute's property list H5.H5Pclose(plist_id); plist_id = H5.H5Aget_create_plist(attribute_id); assertTrue(plist_id > 0); // Get the character encoding and ensure that it is the default (ASCII) try { char_encoding = H5.H5Pget_char_encoding(plist_id); } catch (Throwable err) { err.printStackTrace(); fail("H5Pget_char_encoding: " + err); } assertTrue("testH5Aget_create_plist: get_char_encoding", char_encoding == HDF5Constants.H5T_CSET_ASCII); } catch (Throwable err) { err.printStackTrace(); fail("testH5Aget_create_plist " + err); } finally { if (plist_id > 0) try { H5.H5Pclose(plist_id); } catch (Exception ex) { } if (attribute_id > 0) try { H5.H5Aclose(attribute_id); } catch (Exception ex) { } } } @Test public void testH5Aiterate() { long attr1_id = HDF5Constants.H5I_INVALID_HID; long attr2_id = HDF5Constants.H5I_INVALID_HID; long attr3_id = HDF5Constants.H5I_INVALID_HID; long attr4_id = HDF5Constants.H5I_INVALID_HID; class idata { public String attr_name = null; idata(String name) { this.attr_name = name; } } class H5A_iter_data implements H5A_iterate_t { public ArrayList iterdata = new ArrayList(); } H5A_iterate_t iter_data = new H5A_iter_data(); class H5A_iter_callback implements H5A_iterate_cb { public int callback(long group, String name, H5A_info_t info, H5A_iterate_t op_data) { idata id = new idata(name); ((H5A_iter_data)op_data).iterdata.add(id); return 0; } } try { attr1_id = H5.H5Acreate_by_name(H5fid, ".", "attribute1", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr2_id = H5.H5Acreate_by_name(H5fid, ".", "attribute2", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr3_id = H5.H5Acreate_by_name(H5fid, ".", "attribute3", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr4_id = H5.H5Acreate_by_name(H5fid, ".", "attribute4", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); H5A_iterate_cb iter_cb = new H5A_iter_callback(); try { H5.H5Aiterate(H5fid, HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 0L, iter_cb, iter_data); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aiterate: " + err); } assertFalse("H5Aiterate ", ((H5A_iter_data)iter_data).iterdata.isEmpty()); assertTrue("H5Aiterate " + ((H5A_iter_data)iter_data).iterdata.size(), ((H5A_iter_data)iter_data).iterdata.size() == 4); assertTrue( "H5Aiterate " + (((H5A_iter_data)iter_data).iterdata.get(0)).attr_name, (((H5A_iter_data)iter_data).iterdata.get(0)).attr_name.compareToIgnoreCase("attribute1") == 0); assertTrue( "H5Aiterate " + (((H5A_iter_data)iter_data).iterdata.get(1)).attr_name, (((H5A_iter_data)iter_data).iterdata.get(1)).attr_name.compareToIgnoreCase("attribute2") == 0); assertTrue( "H5Aiterate " + ((idata)((H5A_iter_data)iter_data).iterdata.get(2)).attr_name, (((H5A_iter_data)iter_data).iterdata.get(2)).attr_name.compareToIgnoreCase("attribute3") == 0); assertTrue("H5Aiterate " + ((idata)((H5A_iter_data)iter_data).iterdata.get(3)).attr_name, ((idata)((H5A_iter_data)iter_data).iterdata.get(3)) .attr_name.compareToIgnoreCase("attribute4") == 0); } catch (Throwable err) { err.printStackTrace(); fail("testH5Aiterate: " + err); } finally { if (attr1_id > 0) try { H5.H5Aclose(attr1_id); } catch (Exception ex) { } if (attr2_id > 0) try { H5.H5Aclose(attr2_id); } catch (Exception ex) { } if (attr3_id > 0) try { H5.H5Aclose(attr3_id); } catch (Exception ex) { } if (attr4_id > 0) try { H5.H5Aclose(attr4_id); } catch (Exception ex) { } } } @Test public void testH5Aiterate_by_name() { long attr1_id = HDF5Constants.H5I_INVALID_HID; long attr2_id = HDF5Constants.H5I_INVALID_HID; long attr3_id = HDF5Constants.H5I_INVALID_HID; long attr4_id = HDF5Constants.H5I_INVALID_HID; class idata { public String attr_name = null; idata(String name) { this.attr_name = name; } } class H5A_iter_data implements H5A_iterate_t { public ArrayList iterdata = new ArrayList(); } H5A_iterate_t iter_data = new H5A_iter_data(); class H5A_iter_callback implements H5A_iterate_cb { public int callback(long group, String name, H5A_info_t info, H5A_iterate_t op_data) { idata id = new idata(name); ((H5A_iter_data)op_data).iterdata.add(id); return 0; } } try { attr1_id = H5.H5Acreate_by_name(H5fid, ".", "attribute4", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr2_id = H5.H5Acreate_by_name(H5fid, ".", "attribute3", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr3_id = H5.H5Acreate_by_name(H5fid, ".", "attribute2", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); attr4_id = H5.H5Acreate_by_name(H5fid, ".", "attribute1", type_id, space_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, lapl_id); H5A_iterate_cb iter_cb = new H5A_iter_callback(); try { H5.H5Aiterate_by_name(H5fid, ".", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_INC, 0L, iter_cb, iter_data, HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Aiterate_by_name: " + err); } assertFalse("H5Aiterate_by_name ", ((H5A_iter_data)iter_data).iterdata.isEmpty()); assertTrue("H5Aiterate_by_name " + ((H5A_iter_data)iter_data).iterdata.size(), ((H5A_iter_data)iter_data).iterdata.size() == 4); assertTrue("H5Aiterate_by_name " + ((idata)((H5A_iter_data)iter_data).iterdata.get(1)).attr_name, ((idata)((H5A_iter_data)iter_data).iterdata.get(1)) .attr_name.compareToIgnoreCase("attribute2") == 0); } catch (Throwable err) { err.printStackTrace(); fail("testH5Aiterate: " + err); } finally { if (attr1_id > 0) try { H5.H5Aclose(attr1_id); } catch (Exception ex) { } if (attr2_id > 0) try { H5.H5Aclose(attr2_id); } catch (Exception ex) { } if (attr3_id > 0) try { H5.H5Aclose(attr3_id); } catch (Exception ex) { } if (attr4_id > 0) try { H5.H5Aclose(attr4_id); } catch (Exception ex) { } } } @Test public void testH5AVLwr() { String attr_int_name = "VLIntdata"; String attr_dbl_name = "VLDbldata"; long attr_int_id = HDF5Constants.H5I_INVALID_HID; long attr_dbl_id = HDF5Constants.H5I_INVALID_HID; long atype_int_id = HDF5Constants.H5I_INVALID_HID; long atype_dbl_id = HDF5Constants.H5I_INVALID_HID; long aspace_id = HDF5Constants.H5I_INVALID_HID; long[] dims = {4}; long lsize = 1; ArrayList[] vl_int_data = new ArrayList[4]; ArrayList[] vl_dbl_data = new ArrayList[4]; try { // Write Integer data vl_int_data[0] = new ArrayList(Arrays.asList(1)); vl_int_data[1] = new ArrayList(Arrays.asList(2, 3)); vl_int_data[2] = new ArrayList(Arrays.asList(4, 5, 6)); vl_int_data[3] = new ArrayList(Arrays.asList(7, 8, 9, 10)); Class dataClass = vl_int_data.getClass(); assertTrue("testH5AVLwr.getClass: " + dataClass, dataClass.isArray()); try { atype_int_id = H5.H5Tvlen_create(HDF5Constants.H5T_STD_U32LE); assertTrue("testH5AVLwr.H5Tvlen_create: ", atype_int_id >= 0); } catch (Exception err) { if (atype_int_id > 0) try { H5.H5Tclose(atype_int_id); } catch (Exception ex) { } err.printStackTrace(); fail("H5.testH5AVLwr: " + err); } try { aspace_id = H5.H5Screate_simple(1, dims, null); assertTrue(aspace_id > 0); attr_int_id = H5.H5Acreate(H5did, attr_int_name, atype_int_id, aspace_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); assertTrue("testH5AVLwr: ", attr_int_id >= 0); H5.H5AwriteVL(attr_int_id, atype_int_id, vl_int_data); } catch (Exception err) { if (attr_int_id > 0) try { H5.H5Aclose(attr_int_id); } catch (Exception ex) { } if (atype_int_id > 0) try { H5.H5Tclose(atype_int_id); } catch (Exception ex) { } err.printStackTrace(); fail("H5.testH5AVLwr: " + err); } finally { if (aspace_id > 0) try { H5.H5Sclose(aspace_id); } catch (Exception ex) { } } // Write Double data vl_dbl_data[0] = new ArrayList(Arrays.asList(1.1)); vl_dbl_data[1] = new ArrayList(Arrays.asList(2.2, 3.3)); vl_dbl_data[2] = new ArrayList(Arrays.asList(4.4, 5.5, 6.6)); vl_dbl_data[3] = new ArrayList(Arrays.asList(7.7, 8.8, 9.9, 10.0)); dataClass = vl_dbl_data.getClass(); assertTrue("testH5AVLwr.getClass: " + dataClass, dataClass.isArray()); try { atype_dbl_id = H5.H5Tvlen_create(HDF5Constants.H5T_NATIVE_DOUBLE); assertTrue("testH5AVLwr.H5Tvlen_create: ", atype_dbl_id >= 0); } catch (Exception err) { if (atype_dbl_id > 0) try { H5.H5Tclose(atype_dbl_id); } catch (Exception ex) { } err.printStackTrace(); fail("H5.testH5AVLwr: " + err); } try { aspace_id = H5.H5Screate_simple(1, dims, null); assertTrue(aspace_id > 0); attr_dbl_id = H5.H5Acreate(H5did, attr_dbl_name, atype_dbl_id, aspace_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); assertTrue("testH5AVLwr: ", attr_dbl_id >= 0); H5.H5AwriteVL(attr_dbl_id, atype_dbl_id, vl_dbl_data); } catch (Exception err) { if (attr_dbl_id > 0) try { H5.H5Aclose(attr_dbl_id); } catch (Exception ex) { } if (atype_dbl_id > 0) try { H5.H5Tclose(atype_dbl_id); } catch (Exception ex) { } err.printStackTrace(); fail("H5.testH5AVLwr: " + err); } finally { if (aspace_id > 0) try { H5.H5Sclose(aspace_id); } catch (Exception ex) { } } H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); for (int j = 0; j < dims.length; j++) lsize *= dims[j]; // Read Integer data ArrayList[] vl_readbuf = new ArrayList[4]; for (int j = 0; j < lsize; j++) vl_readbuf[j] = new ArrayList(); try { H5.H5AreadVL(attr_int_id, atype_int_id, vl_readbuf); } catch (Exception ex) { ex.printStackTrace(); } assertTrue("testH5AVLwr:" + vl_readbuf[0].get(0), vl_int_data[0].get(0).equals(vl_readbuf[0].get(0))); assertTrue("testH5AVLwr:" + vl_readbuf[1].get(0), vl_int_data[1].get(0).equals(vl_readbuf[1].get(0))); assertTrue("testH5AVLwr:" + vl_readbuf[2].get(0), vl_int_data[2].get(0).equals(vl_readbuf[2].get(0))); assertTrue("testH5AVLwr:" + vl_readbuf[3].get(0), vl_int_data[3].get(0).equals(vl_readbuf[3].get(0))); // Read Double data vl_readbuf = new ArrayList[4]; for (int j = 0; j < lsize; j++) vl_readbuf[j] = new ArrayList(); try { H5.H5AreadVL(attr_dbl_id, atype_dbl_id, vl_readbuf); } catch (Exception ex) { ex.printStackTrace(); } assertTrue("testH5AVLwr:" + vl_readbuf[0].get(0), vl_dbl_data[0].get(0).equals(vl_readbuf[0].get(0))); assertTrue("testH5AVLwr:" + vl_readbuf[1].get(0), vl_dbl_data[1].get(0).equals(vl_readbuf[1].get(0))); assertTrue("testH5AVLwr:" + vl_readbuf[2].get(0), vl_dbl_data[2].get(0).equals(vl_readbuf[2].get(0))); assertTrue("testH5AVLwr:" + vl_readbuf[3].get(0), vl_dbl_data[3].get(0).equals(vl_readbuf[3].get(0))); } catch (Throwable err) { err.printStackTrace(); fail("H5.testH5AVLwr: " + err); } finally { if (attr_dbl_id > 0) try { H5.H5Aclose(attr_dbl_id); } catch (Exception ex) { } if (attr_int_id > 0) try { H5.H5Aclose(attr_int_id); } catch (Exception ex) { } if (atype_dbl_id > 0) try { H5.H5Tclose(atype_dbl_id); } catch (Exception ex) { } if (atype_int_id > 0) try { H5.H5Tclose(atype_int_id); } catch (Exception ex) { } } } @Test public void testH5AVLwrVL() { String attr_int_name = "VLIntdata"; long attr_int_id = HDF5Constants.H5I_INVALID_HID; long atype_int_id = HDF5Constants.H5I_INVALID_HID; long base_atype_int_id = HDF5Constants.H5I_INVALID_HID; long aspace_id = HDF5Constants.H5I_INVALID_HID; long[] dims = {4}; long lsize = 1; ArrayList[] base_vl_int_data = new ArrayList[4]; ArrayList[] vl_int_data = new ArrayList[4]; try { // Write Integer data vl_int_data[0] = new ArrayList(Arrays.asList(1)); vl_int_data[1] = new ArrayList(Arrays.asList(2, 3)); vl_int_data[2] = new ArrayList(Arrays.asList(4, 5, 6)); vl_int_data[3] = new ArrayList(Arrays.asList(7, 8, 9, 10)); Class dataClass = vl_int_data.getClass(); assertTrue("testH5AVLwrVL.getClass: " + dataClass, dataClass.isArray()); // Write VL data base_vl_int_data[0] = new ArrayList>(); base_vl_int_data[0].add(vl_int_data[0]); base_vl_int_data[1] = new ArrayList>(); base_vl_int_data[1].add(vl_int_data[0]); base_vl_int_data[1].add(vl_int_data[1]); base_vl_int_data[2] = new ArrayList>(); base_vl_int_data[2].add(vl_int_data[0]); base_vl_int_data[2].add(vl_int_data[1]); base_vl_int_data[2].add(vl_int_data[2]); base_vl_int_data[3] = new ArrayList>(); base_vl_int_data[3].add(vl_int_data[0]); base_vl_int_data[3].add(vl_int_data[1]); base_vl_int_data[3].add(vl_int_data[2]); base_vl_int_data[3].add(vl_int_data[3]); try { atype_int_id = H5.H5Tvlen_create(HDF5Constants.H5T_STD_U32LE); assertTrue("testH5AVLwr.H5Tvlen_create: ", atype_int_id >= 0); base_atype_int_id = H5.H5Tvlen_create(atype_int_id); assertTrue("testH5AVLwrVL.H5Tvlen_create: ", base_atype_int_id >= 0); } catch (Exception err) { if (base_atype_int_id > 0) try { H5.H5Tclose(base_atype_int_id); } catch (Exception ex) { } if (atype_int_id > 0) try { H5.H5Tclose(atype_int_id); } catch (Exception ex) { } err.printStackTrace(); fail("H5.testH5AVLwrVL: " + err); } try { aspace_id = H5.H5Screate_simple(1, dims, null); assertTrue(aspace_id > 0); attr_int_id = H5.H5Acreate(H5did, attr_int_name, base_atype_int_id, aspace_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); assertTrue("testH5AVLwrVL: ", attr_int_id >= 0); H5.H5AwriteVL(attr_int_id, base_atype_int_id, base_vl_int_data); } catch (Exception err) { if (attr_int_id > 0) try { H5.H5Aclose(attr_int_id); } catch (Exception ex) { } if (atype_int_id > 0) try { H5.H5Tclose(atype_int_id); } catch (Exception ex) { } err.printStackTrace(); fail("H5.testH5AVLwrVL: " + err); } finally { if (aspace_id > 0) try { H5.H5Sclose(aspace_id); } catch (Exception ex) { } } H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); for (int j = 0; j < dims.length; j++) lsize *= dims[j]; // Read Integer data ArrayList[] base_vl_readbuf = new ArrayList[4]; for (int j = 0; j < lsize; j++) base_vl_readbuf[j] = new ArrayList>(); try { H5.H5AreadVL(attr_int_id, base_atype_int_id, base_vl_readbuf); } catch (Exception ex) { ex.printStackTrace(); } ArrayList> vl_readbuf = (ArrayList>)base_vl_readbuf[0]; assertTrue("vl_readbuf 0 exists", vl_readbuf != null); ArrayList vl_readbuf_int = (ArrayList)(vl_readbuf.get(0)); /* * System.out.println(); System.out.println("vl_readbuf: " + vl_readbuf); * System.out.println("vl_readbuf_int: " + vl_readbuf_int); */ assertTrue("testHADVLwrVL:" + vl_readbuf_int.get(0), vl_int_data[0].get(0).equals(vl_readbuf_int.get(0))); vl_readbuf = (ArrayList>)base_vl_readbuf[1]; vl_readbuf_int = (ArrayList)(vl_readbuf.get(1)); /* * System.out.println("vl_readbuf: " + vl_readbuf); System.out.println("vl_readbuf_int: " + * vl_readbuf_int); */ assertTrue("testH5AVLwrVL:" + vl_readbuf_int.get(1), vl_int_data[1].get(1).equals(vl_readbuf_int.get(1))); vl_readbuf = (ArrayList>)base_vl_readbuf[2]; vl_readbuf_int = (ArrayList)(vl_readbuf.get(2)); /* * System.out.println("vl_readbuf: " + vl_readbuf); System.out.println("vl_readbuf_int: " + * vl_readbuf_int); */ assertTrue("testH5AVLwrVL:" + vl_readbuf_int.get(2), vl_int_data[2].get(2).equals(vl_readbuf_int.get(2))); vl_readbuf = (ArrayList>)base_vl_readbuf[3]; vl_readbuf_int = (ArrayList)(vl_readbuf.get(3)); /* * System.out.println("vl_readbuf: " + vl_readbuf); System.out.println("vl_readbuf_int: " + * vl_readbuf_int); */ assertTrue("testH5AVLwrVL:" + vl_readbuf_int.get(3), vl_int_data[3].get(3).equals(vl_readbuf_int.get(3))); } catch (Throwable err) { err.printStackTrace(); fail("H5.testH5AVLwrVL: " + err); } finally { if (attr_int_id > 0) try { H5.H5Aclose(attr_int_id); } catch (Exception ex) { } if (atype_int_id > 0) try { H5.H5Tclose(atype_int_id); } catch (Exception ex) { } if (base_atype_int_id > 0) try { H5.H5Tclose(base_atype_int_id); } catch (Exception ex) { } } } @Test public void testH5AArraywr() { String att_int_name = "ArrayIntdata"; long att_int_id = HDF5Constants.H5I_INVALID_HID; long atype_int_id = HDF5Constants.H5I_INVALID_HID; long aspace_id = HDF5Constants.H5I_INVALID_HID; long[] dims = {4}; long lsize = 1; ArrayList[] arr_int_data = new ArrayList[4]; try { // Write Integer data arr_int_data[0] = new ArrayList(Arrays.asList(1, 2, 3, 4)); arr_int_data[1] = new ArrayList(Arrays.asList(2, 3, 4, 5)); arr_int_data[2] = new ArrayList(Arrays.asList(4, 5, 6, 7)); arr_int_data[3] = new ArrayList(Arrays.asList(7, 8, 9, 10)); Class dataClass = arr_int_data.getClass(); assertTrue("testH5AArraywr.getClass: " + dataClass, dataClass.isArray()); try { atype_int_id = H5.H5Tarray_create(HDF5Constants.H5T_STD_U32LE, 1, dims); assertTrue("testH5AArraywr.H5Tarray_create: ", atype_int_id >= 0); } catch (Exception err) { if (atype_int_id > 0) try { H5.H5Tclose(atype_int_id); } catch (Exception ex) { } err.printStackTrace(); fail("H5.testH5AArraywr: " + err); } try { aspace_id = H5.H5Screate_simple(1, dims, null); assertTrue(aspace_id > 0); att_int_id = H5.H5Acreate(H5did, att_int_name, atype_int_id, aspace_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); assertTrue("testH5AVLwr: ", att_int_id >= 0); H5.H5AwriteVL(att_int_id, atype_int_id, arr_int_data); } catch (Exception err) { if (att_int_id > 0) try { H5.H5Aclose(att_int_id); } catch (Exception ex) { } if (atype_int_id > 0) try { H5.H5Tclose(atype_int_id); } catch (Exception ex) { } err.printStackTrace(); fail("H5.testH5AVLwr: " + err); } finally { if (aspace_id > 0) try { H5.H5Sclose(aspace_id); } catch (Exception ex) { } } H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); for (int j = 0; j < dims.length; j++) lsize *= dims[j]; // Read Integer data ArrayList[] arr_readbuf = new ArrayList[4]; for (int j = 0; j < lsize; j++) arr_readbuf[j] = new ArrayList(); try { H5.H5AreadVL(att_int_id, atype_int_id, arr_readbuf); } catch (Exception ex) { ex.printStackTrace(); } assertTrue("testH5AVLwr:" + arr_readbuf[0].get(0), arr_int_data[0].get(0).equals(arr_readbuf[0].get(0))); assertTrue("testH5AVLwr:" + arr_readbuf[1].get(0), arr_int_data[1].get(0).equals(arr_readbuf[1].get(0))); assertTrue("testH5AVLwr:" + arr_readbuf[2].get(0), arr_int_data[2].get(0).equals(arr_readbuf[2].get(0))); assertTrue("testH5AVLwr:" + arr_readbuf[3].get(0), arr_int_data[3].get(0).equals(arr_readbuf[3].get(0))); } catch (Throwable err) { err.printStackTrace(); fail("H5.testH5AArraywr: " + err); } finally { if (att_int_id > 0) try { H5.H5Aclose(att_int_id); } catch (Exception ex) { } if (atype_int_id > 0) try { H5.H5Tclose(atype_int_id); } catch (Exception ex) { } } } @Test public void testH5AArray_string_buffer() throws Throwable { String att_str_name = "ArrayStringdata"; long att_str_id = HDF5Constants.H5I_INVALID_HID; long atype_str_id = HDF5Constants.H5I_INVALID_HID; long aspace_id = HDF5Constants.H5I_INVALID_HID; long[] strdims = {4}; long[] dims = {6}; long lsize = 1; String[] str_data0 = {"Parting", "is such", "sweet", "sorrow."}; String[] str_data1 = {"Testing", "one", "two", "three."}; String[] str_data2 = {"Dog,", "man's", "best", "friend."}; String[] str_data3 = {"Diamonds", "are", "a", "girls!"}; String[] str_data4 = {"S A", "T U R", "D A Y", "night"}; String[] str_data5 = {"That's", "all", "folks", "!!!"}; ArrayList[] arr_str_data = new ArrayList[6]; arr_str_data[0] = new ArrayList(Arrays.asList(str_data0)); arr_str_data[1] = new ArrayList(Arrays.asList(str_data1)); arr_str_data[2] = new ArrayList(Arrays.asList(str_data2)); arr_str_data[3] = new ArrayList(Arrays.asList(str_data3)); arr_str_data[4] = new ArrayList(Arrays.asList(str_data4)); arr_str_data[5] = new ArrayList(Arrays.asList(str_data5)); try { H5atid = H5.H5Tcopy(HDF5Constants.H5T_C_S1); } catch (Throwable err) { err.printStackTrace(); fail("testH5AArray_string_buffer.H5.H5Tcopy: " + err); } assertTrue("testH5AArray_string_buffer.H5Tcopy: ", H5atid >= 0); try { H5.H5Tset_size(H5atid, HDF5Constants.H5T_VARIABLE); assertTrue("testH5AArray_string_buffer.H5Tis_variable_str", H5.H5Tis_variable_str(H5atid)); } catch (Throwable err) { err.printStackTrace(); fail("testH5DArray_string_buffer.H5Tset_size: " + err); } try { atype_str_id = H5.H5Tarray_create(H5atid, 1, strdims); assertTrue("testH5AArray_string_buffer.H5Tarray_create: ", atype_str_id >= 0); } catch (Exception err) { if (atype_str_id > 0) try { H5.H5Tclose(atype_str_id); } catch (Exception ex) { } err.printStackTrace(); fail("testH5AArray_string_buffer: " + err); } try { aspace_id = H5.H5Screate_simple(1, dims, null); assertTrue(aspace_id > 0); att_str_id = H5.H5Acreate(H5did, att_str_name, atype_str_id, aspace_id, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); assertTrue("testH5AArray_string_buffer: ", att_str_id >= 0); H5.H5AwriteVL(att_str_id, atype_str_id, arr_str_data); } catch (Exception err) { if (att_str_id > 0) try { H5.H5Dclose(att_str_id); } catch (Exception ex) { } if (atype_str_id > 0) try { H5.H5Tclose(atype_str_id); } catch (Exception ex) { } err.printStackTrace(); fail("testH5AArray_string_buffer: " + err); } finally { if (aspace_id > 0) try { H5.H5Sclose(aspace_id); } catch (Exception ex) { } } H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); for (int j = 0; j < dims.length; j++) lsize *= dims[j]; ArrayList[] arr_readbuf = new ArrayList[6]; for (int j = 0; j < lsize; j++) arr_readbuf[j] = new ArrayList(); try { H5.H5AreadVL(att_str_id, atype_str_id, arr_readbuf); } catch (Exception ex) { ex.printStackTrace(); } finally { if (att_str_id > 0) try { H5.H5Aclose(att_str_id); } catch (Exception ex) { } if (atype_str_id > 0) try { H5.H5Tclose(atype_str_id); } catch (Exception ex) { } } assertTrue("testH5AArray_string_buffer:" + arr_readbuf[0].get(0), arr_str_data[0].get(0).equals(arr_readbuf[0].get(0))); assertTrue("testH5AArray_string_buffer:" + arr_readbuf[1].get(0), arr_str_data[1].get(0).equals(arr_readbuf[1].get(0))); assertTrue("testH5AArray_string_buffer:" + arr_readbuf[2].get(0), arr_str_data[2].get(0).equals(arr_readbuf[2].get(0))); assertTrue("testH5AArray_string_buffer:" + arr_readbuf[3].get(0), arr_str_data[3].get(0).equals(arr_readbuf[3].get(0))); } }