/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * 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 java.io.File; import java.util.ArrayList; import hdf.hdf5lib.H5; import hdf.hdf5lib.HDF5Constants; import hdf.hdf5lib.callbacks.H5O_iterate_opdata_t; import hdf.hdf5lib.callbacks.H5O_iterate_t; import hdf.hdf5lib.exceptions.HDF5Exception; import hdf.hdf5lib.exceptions.HDF5LibraryException; import hdf.hdf5lib.structs.H5O_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 TestH5Ocreate { @Rule public TestName testname = new TestName(); private static final String H5_EXTFILE = "h5ex_g_iterateO2.hdf"; private static final String H5_FILE = "testO.h5"; private static final int DIM_X = 4; private static final int DIM_Y = 6; long H5fcpl = HDF5Constants.H5I_INVALID_HID; long H5fid = HDF5Constants.H5I_INVALID_HID; long H5dsid = HDF5Constants.H5I_INVALID_HID; long H5did1 = HDF5Constants.H5I_INVALID_HID; long H5did2 = HDF5Constants.H5I_INVALID_HID; long H5gcpl = HDF5Constants.H5I_INVALID_HID; long H5gid = HDF5Constants.H5I_INVALID_HID; long[] H5dims = {DIM_X, DIM_Y}; private final void _deleteFile(String filename) { File file = new File(filename); if (file.exists()) { try { file.delete(); } catch (Exception e) { e.printStackTrace(); } } } 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("TestH5O._createDataset: ", did > 0); return did; } private final long _createGroup(long fid, String name) { long gid = HDF5Constants.H5I_INVALID_HID; try { H5gcpl = HDF5Constants.H5P_DEFAULT; gid = H5.H5Gcreate(fid, name, HDF5Constants.H5P_DEFAULT, H5gcpl, HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Gcreate: " + err); } assertTrue("TestH5O._createGroup: ", gid > 0); return gid; } private final void _createHardLink(long fid, long cid, String curname, long did, String dstname, long lcpl, long lapl) { boolean link_exists = false; try { H5.H5Lcreate_hard(cid, curname, did, dstname, lcpl, lapl); H5.H5Fflush(fid, HDF5Constants.H5F_SCOPE_LOCAL); link_exists = H5.H5Lexists(did, dstname, lapl); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Lcreate_hard: " + err); } assertTrue("TestH5O._createHardLink ", link_exists); } private final void _createSoftLink(long fid, String curname, long did, String dstname, long lcpl, long lapl) { boolean link_exists = false; try { H5.H5Lcreate_soft(curname, did, dstname, lcpl, lapl); H5.H5Fflush(fid, HDF5Constants.H5F_SCOPE_LOCAL); link_exists = H5.H5Lexists(did, dstname, lapl); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Lcreate_soft: " + err); } assertTrue("TestH5O._createSoftLink ", link_exists); } private final void _createExternalLink(long fid, String ext_filename, String curname, long did, String dstname, long lcpl, long lapl) { boolean link_exists = false; try { H5.H5Lcreate_external(ext_filename, curname, did, dstname, lcpl, lapl); H5.H5Fflush(fid, HDF5Constants.H5F_SCOPE_LOCAL); link_exists = H5.H5Lexists(did, dstname, lapl); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Lcreate_external: " + err); } assertTrue("TestH5O._createExternalLink ", link_exists); } @Before public void createH5file() throws NullPointerException, HDF5Exception { assertTrue("H5 open ids is 0", H5.getOpenIDCount() == 0); System.out.print(testname.getMethodName()); try { H5fcpl = H5.H5Pcreate(HDF5Constants.H5P_FILE_CREATE); H5.H5Pset_link_creation_order(H5fcpl, HDF5Constants.H5P_CRT_ORDER_TRACKED + HDF5Constants.H5P_CRT_ORDER_INDEXED); H5fid = H5.H5Fcreate(H5_FILE, HDF5Constants.H5F_ACC_TRUNC, H5fcpl, HDF5Constants.H5P_DEFAULT); H5dsid = H5.H5Screate_simple(2, H5dims, null); H5did1 = _createDataset(H5fid, H5dsid, "DS1", HDF5Constants.H5P_DEFAULT); H5gid = _createGroup(H5fid, "/G1"); H5did2 = _createDataset(H5gid, H5dsid, "DS2", HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("TestH5O.createH5file: " + err); } assertTrue("TestH5O.createH5file: H5.H5Fcreate: ", H5fid > 0); assertTrue("TestH5O.createH5file: H5.H5Screate_simple: ", H5dsid > 0); assertTrue("TestH5O.createH5file: H5.H5Gcreate: ", H5gid > 0); H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); } @After public void deleteH5file() throws HDF5LibraryException { if (H5gid > 0) try { H5.H5Gclose(H5gid); } catch (Exception ex) { } if (H5gcpl > 0) try { H5.H5Pclose(H5gcpl); } catch (Exception ex) { } if (H5did2 > 0) try { H5.H5Dclose(H5did2); } catch (Exception ex) { } if (H5dsid > 0) try { H5.H5Sclose(H5dsid); } catch (Exception ex) { } if (H5did1 > 0) try { H5.H5Dclose(H5did1); } catch (Exception ex) { } if (H5fid > 0) try { H5.H5Fclose(H5fid); } catch (Exception ex) { } if (H5fcpl > 0) try { H5.H5Pclose(H5fcpl); } catch (Exception ex) { } _deleteFile(H5_FILE); System.out.println(); } @Test(expected = HDF5LibraryException.class) public void testH5Ocopy_cur_not_exists() throws Throwable { H5.H5Ocopy(H5fid, "None", H5fid, "DS1", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); } @Test public void testH5Ocopy() { try { H5.H5Ocopy(H5fid, "DS1", H5fid, "CPY1", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); boolean link_exists = H5.H5Lexists(H5fid, "CPY1", HDF5Constants.H5P_DEFAULT); assertTrue("testH5Ocopy:H5Lexists ", link_exists); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Ocopy: " + err); } } @Test(expected = HDF5LibraryException.class) public void testH5Ocopy_dst_link_exists() throws Throwable { _createHardLink(H5fid, H5fid, "/G1/DS2", H5fid, "CPY1", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); H5.H5Ocopy(H5fid, "CPY1", H5fid, "/G1/DS2", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); } @Test public void testH5Oget_info_by_idx_n0_create() { H5O_info_t obj_info = null; try { int order = H5.H5Pget_link_creation_order(H5fcpl); assertTrue("creation order :" + order, order == HDF5Constants.H5P_CRT_ORDER_TRACKED + HDF5Constants.H5P_CRT_ORDER_INDEXED); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_info_by_idx_n0:H5Pget_link_creation_order " + err); } try { obj_info = H5.H5Oget_info_by_idx(H5fid, "/", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 0, HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_info_by_idx: " + err); } assertFalse("H5Oget_info_by_idx ", obj_info == null); assertTrue("H5Oget_info_by_idx link type", obj_info.type == HDF5Constants.H5O_TYPE_DATASET); } @Test public void testH5Oget_info_by_idx_n1_create() { H5O_info_t obj_info = null; try { int order = H5.H5Pget_link_creation_order(H5fcpl); assertTrue("creation order :" + order, order == HDF5Constants.H5P_CRT_ORDER_TRACKED + HDF5Constants.H5P_CRT_ORDER_INDEXED); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_info_by_idx_n1:H5Pget_link_creation_order " + err); } try { obj_info = H5.H5Oget_info_by_idx(H5fid, "/", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 1, HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_info_by_idx: " + err); } assertFalse("H5Oget_info_by_idx ", obj_info == null); assertTrue("H5Oget_info_by_idx link type", obj_info.type == HDF5Constants.H5O_TYPE_GROUP); } @Test public void testH5Oget_info_softlink() { H5O_info_t obj_info = null; _createSoftLink(H5fid, "/G1/DS2", H5fid, "L1", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); try { obj_info = H5.H5Oget_info_by_name(H5fid, "L1", HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_info: " + err); } assertFalse("H5Oget_info", obj_info == null); assertTrue("H5Oget_info link type", obj_info.type == HDF5Constants.H5O_TYPE_DATASET); assertTrue("Link Object Token", obj_info.token != null); } @Test(expected = HDF5LibraryException.class) public void testH5Oget_info_softlink_dangle() throws Throwable { _createSoftLink(H5fid, "DS3", H5fid, "L2", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); H5.H5Oget_info_by_name(H5fid, "L2", HDF5Constants.H5P_DEFAULT); } @Test public void testH5Oget_info_externallink() { H5O_info_t obj_info = null; _createExternalLink(H5fid, H5_EXTFILE, "DT1", H5fid, "L1", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); try { obj_info = H5.H5Oget_info_by_name(H5fid, "L1", HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_info: " + err); } assertFalse("H5Oget_info", obj_info == null); assertTrue("H5Oget_info link type", obj_info.type == HDF5Constants.H5O_TYPE_NAMED_DATATYPE); assertTrue("Link Object Token", obj_info.token != null); } @Test public void testH5Olink() { long oid = HDF5Constants.H5I_INVALID_HID; H5O_info_t obj_info = null; H5O_info_t dst_obj_info = null; try { oid = H5.H5Oopen(H5fid, "DS1", HDF5Constants.H5P_DEFAULT); obj_info = H5.H5Oget_info(oid); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_info: " + err); } try { H5.H5Olink(oid, H5fid, "CPY1", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Olink: " + err); } try { H5.H5Oclose(oid); } catch (Exception ex) { } assertFalse("H5Oget_info ", obj_info == null); assertTrue("H5Oget_info object type", obj_info.type == HDF5Constants.H5O_TYPE_DATASET); try { dst_obj_info = H5.H5Oget_info_by_name(H5fid, "CPY1", HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_info_by_name: " + err); } assertFalse("H5Oget_info ", dst_obj_info == null); assertTrue("H5Oget_info object type", dst_obj_info.type == HDF5Constants.H5O_TYPE_DATASET); } @Test public void testH5Ovisit_create() { try { int order = H5.H5Pget_link_creation_order(H5fcpl); assertTrue("creation order :" + order, order == HDF5Constants.H5P_CRT_ORDER_TRACKED + HDF5Constants.H5P_CRT_ORDER_INDEXED); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Ovisit_create:H5Pget_link_creation_order " + err); } _createHardLink(H5fid, H5fid, "/G1/DS2", H5fid, "CPY1", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); _createExternalLink(H5fid, H5_EXTFILE, "DT1", H5fid, "LE", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); _createSoftLink(H5fid, "/G1/DS2", H5fid, "LS", HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT); class idata { public String link_name = null; public int link_type = -1; idata(String name, int type) { this.link_name = name; this.link_type = type; } } class H5O_iter_data implements H5O_iterate_opdata_t { public ArrayList iterdata = new ArrayList(); } H5O_iterate_opdata_t iter_data = new H5O_iter_data(); class H5O_iter_callback implements H5O_iterate_t { public int callback(long group, String name, H5O_info_t info, H5O_iterate_opdata_t op_data) { idata id = new idata(name, info.type); ((H5O_iter_data)op_data).iterdata.add(id); return 0; } } H5O_iterate_t iter_cb = new H5O_iter_callback(); try { H5.H5Ovisit(H5fid, HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, iter_cb, iter_data); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Ovisit: " + err); } assertFalse("H5Ovisit ", ((H5O_iter_data)iter_data).iterdata.isEmpty()); assertTrue("H5Ovisit " + ((H5O_iter_data)iter_data).iterdata.size(), ((H5O_iter_data)iter_data).iterdata.size() == 4); assertTrue("H5Ovisit " + ((idata)((H5O_iter_data)iter_data).iterdata.get(0)).link_name, ((idata)((H5O_iter_data)iter_data).iterdata.get(0)).link_name.compareToIgnoreCase(".") == 0); assertTrue("H5Ovisit " + ((idata)((H5O_iter_data)iter_data).iterdata.get(1)).link_name, ((idata)((H5O_iter_data)iter_data).iterdata.get(1)).link_name.compareToIgnoreCase("DS1") == 0); assertTrue("H5Ovisit " + ((idata)((H5O_iter_data)iter_data).iterdata.get(2)).link_name, ((idata)((H5O_iter_data)iter_data).iterdata.get(2)).link_name.compareToIgnoreCase("G1") == 0); assertTrue( "H5Ovisit " + ((idata)((H5O_iter_data)iter_data).iterdata.get(3)).link_name, ((idata)((H5O_iter_data)iter_data).iterdata.get(3)).link_name.compareToIgnoreCase("G1/DS2") == 0); } @SuppressWarnings("deprecation") @Test public void testH5Ocomment() { long oid = HDF5Constants.H5I_INVALID_HID; String obj_comment = null; try { oid = H5.H5Oopen(H5fid, "DS1", HDF5Constants.H5P_DEFAULT); H5.H5Oset_comment(oid, "Test Comment"); H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oset_comment: " + err); } try { obj_comment = H5.H5Oget_comment(oid); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_comment: " + err); } try { H5.H5Oclose(oid); } catch (Exception ex) { } assertFalse("H5Oget_comment: ", obj_comment == null); assertTrue("H5Oget_comment: ", obj_comment.compareTo("Test Comment") == 0); } @SuppressWarnings("deprecation") @Test public void testH5Ocomment_clear() { long oid = HDF5Constants.H5I_INVALID_HID; String obj_comment = null; try { oid = H5.H5Oopen(H5fid, "DS1", HDF5Constants.H5P_DEFAULT); H5.H5Oset_comment(oid, "Test Comment"); H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oset_comment: " + err); } try { obj_comment = H5.H5Oget_comment(oid); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_comment: " + err); } assertFalse("H5Oget_comment: ", obj_comment == null); assertTrue("H5Oget_comment: ", obj_comment.compareTo("Test Comment") == 0); try { H5.H5Oset_comment(oid, null); H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oset_comment: " + err); } try { obj_comment = H5.H5Oget_comment(oid); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_comment: " + err); } try { H5.H5Oclose(oid); } catch (Exception ex) { } assertTrue("H5Oget_comment: ", obj_comment == null); } @SuppressWarnings("deprecation") @Test public void testH5Ocomment_by_name() { String obj_comment = null; try { H5.H5Oset_comment_by_name(H5fid, "DS1", "Test Comment", HDF5Constants.H5P_DEFAULT); H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oset_comment_by_name: " + err); } try { obj_comment = H5.H5Oget_comment_by_name(H5fid, "DS1", HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_comment_by_name: " + err); } assertFalse("H5Oget_comment_by_name: ", obj_comment == null); assertTrue("H5Oget_comment_by_name: ", obj_comment.compareTo("Test Comment") == 0); } @SuppressWarnings("deprecation") @Test public void testH5Ocomment_by_name_clear() { String obj_comment = null; try { H5.H5Oset_comment_by_name(H5fid, "DS1", "Test Comment", HDF5Constants.H5P_DEFAULT); H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oset_comment_by_name: " + err); } try { obj_comment = H5.H5Oget_comment_by_name(H5fid, "DS1", HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_comment_by_name: " + err); } assertFalse("H5Oget_comment_by_name: ", obj_comment == null); assertTrue("H5Oget_comment_by_name: ", obj_comment.compareTo("Test Comment") == 0); try { H5.H5Oset_comment_by_name(H5fid, "DS1", null, HDF5Constants.H5P_DEFAULT); H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oset_comment_by_name: " + err); } try { obj_comment = H5.H5Oget_comment_by_name(H5fid, "DS1", HDF5Constants.H5P_DEFAULT); } catch (Throwable err) { err.printStackTrace(); fail("H5.H5Oget_comment_by_name: " + err); } assertTrue("H5Oget_comment_by_name: ", obj_comment == null); } @Test public void testH5Oinc_dec_count() { long oid = HDF5Constants.H5I_INVALID_HID; H5O_info_t obj_info = null; try { try { oid = H5.H5Oopen(H5fid, "G1", HDF5Constants.H5P_DEFAULT); obj_info = H5.H5Oget_info(oid); assertFalse("testH5Oinc_dec_count: H5Oget_info ", obj_info == null); assertTrue("testH5Oinc_dec_count: H5Oget_info reference count", obj_info.rc == 1); } catch (Throwable err) { err.printStackTrace(); fail("testH5Oinc_dec_count: H5.H5Oget_info: " + err); } try { H5.H5Oincr_refcount(oid); } catch (Throwable err) { err.printStackTrace(); fail("testH5Oinc_dec_count: H5.H5Oincr_refcount: " + err); } try { obj_info = H5.H5Oget_info(oid); assertFalse("testH5Oinc_dec_count: H5Oget_info ", obj_info == null); assertTrue("testH5Oinc_dec_count: H5Oget_info reference count", obj_info.rc == 2); } catch (Throwable err) { err.printStackTrace(); fail("testH5Oinc_dec_count: H5.H5Oget_info: " + err); } try { H5.H5Odecr_refcount(oid); } catch (Throwable err) { err.printStackTrace(); fail("testH5Oinc_dec_count: H5.H5Odecr_refcount: " + err); } try { obj_info = H5.H5Oget_info(oid); assertFalse("testH5Oinc_dec_count: H5Oget_info ", obj_info == null); assertTrue("testH5Oinc_dec_count: H5Oget_info reference count", obj_info.rc == 1); } catch (Throwable err) { err.printStackTrace(); fail("testH5Oinc_dec_count: H5.H5Oget_info: " + err); } } finally { try { H5.H5Oclose(oid); } catch (Exception ex) { } } } @Test public void testH5Ocork() { boolean corked = false; // Check cork status of the group: not corked try { corked = H5.H5Oare_mdc_flushes_disabled(H5gid); } catch (Throwable err) { err.printStackTrace(); fail("testH5Ocork: H5.H5Oare_mdc_flushes_disabled: " + err); } assertFalse("H5Oare_mdc_flushes_disabled: ", corked); // Cork the group: an object try { H5.H5Odisable_mdc_flushes(H5gid); } catch (Throwable err) { err.printStackTrace(); fail("testH5Ocork: H5.H5Odisable_mdc_flushes: " + err); } // Check cork status of the group: corked try { corked = H5.H5Oare_mdc_flushes_disabled(H5gid); } catch (Throwable err) { err.printStackTrace(); fail("testH5Ocork: H5.H5Oare_mdc_flushes_disabled: " + err); } assertTrue("H5Oare_mdc_flushes_disabled: ", corked); // Unork the group: an object try { H5.H5Oenable_mdc_flushes(H5gid); } catch (Throwable err) { err.printStackTrace(); fail("testH5Ocork: H5.H5Oenable_mdc_flushes: " + err); } // Check cork status of the group: corked try { corked = H5.H5Oare_mdc_flushes_disabled(H5gid); } catch (Throwable err) { err.printStackTrace(); fail("testH5Ocork: H5.H5Oare_mdc_flushes_disabled: " + err); } assertFalse("H5Oare_mdc_flushes_disabled: ", corked); } }