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89fbe00dec
* commit '54957d37f5aa73912763dbb6e308555e863c43f4': Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes. Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh. Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1 Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
365 lines
14 KiB
Java
365 lines
14 KiB
Java
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
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* Copyright by The HDF Group. *
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* Copyright by the Board of Trustees of the University of Illinois. *
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* All rights reserved. *
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* *
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* This file is part of HDF5. The full HDF5 copyright notice, including *
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* terms governing use, modification, and redistribution, is contained in *
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* the COPYING file, which can be found at the root of the source code *
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* distribution tree, or in https://support.hdfgroup.org/ftp/HDF5/releases. *
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* If you do not have access to either file, you may request a copy from *
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* help@hdfgroup.org. *
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* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
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package test;
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import static org.junit.Assert.assertEquals;
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import static org.junit.Assert.assertTrue;
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import static org.junit.Assert.fail;
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import java.io.File;
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import hdf.hdf5lib.H5;
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import hdf.hdf5lib.HDF5Constants;
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import hdf.hdf5lib.exceptions.HDF5Exception;
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import hdf.hdf5lib.exceptions.HDF5LibraryException;
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import org.junit.After;
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import org.junit.Before;
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import org.junit.Ignore;
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import org.junit.Rule;
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import org.junit.Test;
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import org.junit.rules.TestName;
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public class TestH5Ocopy {
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@Rule public TestName testname = new TestName();
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private static final String FILENAME = "testRefsattribute.h5";
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private static final int DIM_X = 4;
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private static final int DIM_Y = 6;
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long H5fid = -1;
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long H5dsid = -1;
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long H5did1 = -1;
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long H5did2 = -1;
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long H5gcpl = -1;
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long H5gid = -1;
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long H5dsid2 = -1;
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long[] dims = { 2 };
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private final void _deleteFile(String filename) {
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File file = new File(filename);
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if (file.exists()) {
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try {
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file.delete();
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}
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catch (Exception e) {
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e.printStackTrace();
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}
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}
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}
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private final long _createDataset(long fid, long dsid, String name, long dapl) {
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long did = -1;
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try {
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did = H5.H5Dcreate(fid, name,
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HDF5Constants.H5T_STD_I32BE, dsid,
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HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, dapl);
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}
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catch (Throwable err) {
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err.printStackTrace();
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fail("H5.H5Dcreate: " + err);
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}
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assertTrue("TestH5O._createDataset: ",did >= 0);
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return did;
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}
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private final long _createGroup(long fid, String name) {
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long gid = -1;
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try {
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H5gcpl = HDF5Constants.H5P_DEFAULT;
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gid = H5.H5Gcreate(fid, name, HDF5Constants.H5P_DEFAULT,
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H5gcpl, HDF5Constants.H5P_DEFAULT);
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}
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catch (Throwable err) {
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err.printStackTrace();
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fail("H5.H5Gcreate: " + err);
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}
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assertTrue("TestH5O._createGroup: ",gid >= 0);
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return gid;
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}
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@Before
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public void createH5file()
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throws NullPointerException, HDF5Exception {
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assertTrue("H5 open ids is 0",H5.getOpenIDCount()==0);
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System.out.print(testname.getMethodName());
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try {
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H5fid = H5.H5Fcreate(FILENAME, HDF5Constants.H5F_ACC_TRUNC,
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HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
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H5dsid2 = H5.H5Screate(HDF5Constants.H5S_SCALAR);
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H5did1 = _createDataset(H5fid, H5dsid2, "DS2", HDF5Constants.H5P_DEFAULT);
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H5dsid = H5.H5Screate_simple(1, dims, null);
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H5gid = _createGroup(H5fid, "/G1");
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H5did2 = _createDataset(H5gid, H5dsid, "DS1", HDF5Constants.H5P_DEFAULT);
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}
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catch (Throwable err) {
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err.printStackTrace();
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fail("TestH5O.createH5file: " + err);
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}
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assertTrue("TestH5O.createH5file: H5.H5Fcreate: ",H5fid >= 0);
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assertTrue("TestH5O.createH5file: H5.H5Screate_simple: ",H5dsid >= 0);
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assertTrue("TestH5O.createH5file: H5.H5Gcreate: ",H5gid >= 0);
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H5.H5Fflush(H5fid, HDF5Constants.H5F_SCOPE_LOCAL);
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}
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@After
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public void deleteH5file() throws HDF5LibraryException {
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if (H5gid > 0)
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try {H5.H5Gclose(H5gid);} catch (Exception ex) {}
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if (H5did2 > 0)
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try {H5.H5Dclose(H5did2);} catch (Exception ex) {}
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if (H5dsid > 0)
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try {H5.H5Sclose(H5dsid);} catch (Exception ex) {}
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if (H5dsid2 > 0)
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try {H5.H5Sclose(H5dsid2);} catch (Exception ex) {}
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if (H5did1 > 0)
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try {H5.H5Dclose(H5did1);} catch (Exception ex) {}
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if (H5fid > 0)
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try {H5.H5Fclose(H5fid);} catch (Exception ex) {}
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_deleteFile(FILENAME);
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System.out.println();
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}
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@Test
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public void testH5OcopyRefsAttr() {
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long ocp_plist_id = -1;
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byte rbuf0[]=null , rbuf1[] = null;
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byte[] dset_data = new byte[16];
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long attribute_id = -1;
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try {
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rbuf0 = H5.H5Rcreate(H5fid, "/G1", HDF5Constants.H5R_OBJECT, -1);
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rbuf1 = H5.H5Rcreate(H5fid, "DS2", HDF5Constants.H5R_OBJECT, -1);
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//System.arraycopy(rbuf0, 0, dset_data, 0, 8);
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System.arraycopy(rbuf1, 0, dset_data, 8, 8);
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}
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catch (Exception ex) {
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fail("testH5OcopyRefsAttr: H5Rcreate failed");
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}
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try {
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attribute_id = H5.H5Acreate(H5did2, "A1", HDF5Constants.H5T_STD_REF_OBJ, H5dsid, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
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assertTrue("testH5OcopyRefsAttr.H5Acreate: ", attribute_id >= 0);
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H5.H5Awrite(attribute_id, HDF5Constants.H5T_STD_REF_OBJ, dset_data);
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H5.H5Aclose(attribute_id);
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}
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catch (Exception ex) {
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fail("testH5OcopyRefsAttr: H5Awrite failed");
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}
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finally {
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try {H5.H5Aclose(attribute_id);} catch (Exception exx) {}
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}
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try {
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ocp_plist_id = H5.H5Pcreate(HDF5Constants.H5P_OBJECT_COPY);
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assertTrue("testH5OcopyRefsAttr.H5Pcreate: ", ocp_plist_id >= 0);
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H5.H5Pset_copy_object(ocp_plist_id, HDF5Constants.H5O_COPY_EXPAND_REFERENCE_FLAG);
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H5.H5Ocopy(H5fid, ".", H5fid, "CPYREF", ocp_plist_id, HDF5Constants.H5P_DEFAULT);
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}
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catch (Exception ex) {
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fail("testH5OcopyRefsAttr: H5Ocopy failed");
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}
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finally {
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try {H5.H5Pclose(ocp_plist_id);} catch (Exception ex) {}
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}
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}
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@Test
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public void testH5OcopyRefsDatasettodiffFile() {
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byte rbuf1[] = null;
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byte[] dset_data = new byte[16];
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long ocp_plist_id = -1;
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long dataset_id = -1;
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long H5fid2 = -1;
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try {
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rbuf1 = H5.H5Rcreate(H5fid, "DS2", HDF5Constants.H5R_OBJECT, -1);
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System.arraycopy(rbuf1, 0, dset_data, 8, 8);
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dataset_id = H5.H5Dcreate(H5fid, "DSREF",
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HDF5Constants.H5T_STD_REF_OBJ, H5dsid,
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HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
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assertTrue("testH5OcopyRefsDatasettodiffFile.H5Dcreate: ", dataset_id >= 0);
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H5.H5Dwrite(dataset_id, HDF5Constants.H5T_STD_REF_OBJ,
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HDF5Constants.H5S_ALL, HDF5Constants.H5S_ALL,
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HDF5Constants.H5P_DEFAULT, dset_data);
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H5.H5Dclose(dataset_id);
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}
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catch (Exception ex) {
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fail("testH5OcopyRefsDatasettodiffFile: create dataset failed");
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}
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finally {
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try {H5.H5Dclose(dataset_id);} catch (Exception exx) {}
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}
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try {
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//create new file
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H5fid2 = H5.H5Fcreate("copy.h5", HDF5Constants.H5F_ACC_TRUNC,
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HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
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assertTrue("testH5OcopyRefsDatasettodiffFile.H5Fcreate: ", H5fid2 >= 0);
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H5.H5Fflush(H5fid2, HDF5Constants.H5F_SCOPE_LOCAL);
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}
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catch (Exception ex) {
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try {H5.H5Fclose(H5fid2);} catch (Exception exx) {}
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fail("testH5OcopyRefsDatasettodiffFile: H5Fcreate failed");
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}
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try {
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//create object copy property list id and set the flags.
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ocp_plist_id = H5.H5Pcreate(HDF5Constants.H5P_OBJECT_COPY);
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assertTrue("testH5OcopyRefsDatasettodiffFile.H5Pcreate: ", ocp_plist_id >= 0);
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H5.H5Pset_copy_object(ocp_plist_id, HDF5Constants.H5O_COPY_EXPAND_REFERENCE_FLAG);
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//Perform copy function.
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H5.H5Ocopy(H5fid, ".", H5fid2, "CPYREFD", ocp_plist_id, HDF5Constants.H5P_DEFAULT);
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}
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catch (Exception ex){
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ex.printStackTrace();
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fail("testH5OcopyRefsDatasettodiffFile: H5Ocopy failed");
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}
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finally {
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try {H5.H5Pclose(ocp_plist_id);} catch (Exception ex) {}
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try {H5.H5Fclose(H5fid2);} catch (Exception ex) {}
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}
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_deleteFile("copy.h5");
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}
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@Test
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public void testH5OcopyRefsDatasettosameFile() {
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byte rbuf0[]=null , rbuf1[] = null;
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byte[] dset_data = new byte[16];
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long ocp_plist_id = -1;
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long dataset_id = -1;
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long did = -1;
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int obj_type = -1;
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byte[] read_data = new byte[16];
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try {
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rbuf0 = H5.H5Rcreate(H5fid, "/G1", HDF5Constants.H5R_OBJECT, -1);
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rbuf1 = H5.H5Rcreate(H5fid, "DS2", HDF5Constants.H5R_OBJECT, -1);
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System.arraycopy(rbuf0, 0, dset_data, 0, 8);
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System.arraycopy(rbuf1, 0, dset_data, 8, 8);
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//Create a dataset and write object references to it.
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dataset_id = H5.H5Dcreate(H5fid, "DSREF",
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HDF5Constants.H5T_STD_REF_OBJ, H5dsid,
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HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
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assertTrue("testH5OcopyRefsDatasettosameFile.H5Dcreate: ", dataset_id >= 0);
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H5.H5Dwrite(dataset_id, HDF5Constants.H5T_STD_REF_OBJ,
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HDF5Constants.H5S_ALL, HDF5Constants.H5S_ALL,
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HDF5Constants.H5P_DEFAULT, dset_data);
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//Close the dataset.
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H5.H5Dclose(dataset_id);
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}
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catch (Exception ex) {
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try {H5.H5Dclose(dataset_id);} catch (Exception exx) {}
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fail("testH5OcopyRefsDatasettosameFile: create dataset failed");
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}
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try {
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ocp_plist_id = H5.H5Pcreate(HDF5Constants.H5P_OBJECT_COPY);
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assertTrue("testH5OcopyRefsDatasettosameFile.H5Pcreate: ", ocp_plist_id >= 0);
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H5.H5Pset_copy_object(ocp_plist_id, HDF5Constants.H5O_COPY_EXPAND_REFERENCE_FLAG);
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}
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catch (Exception ex) {
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try {H5.H5Pclose(ocp_plist_id);} catch (Exception exx) {}
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fail("testH5OcopyRefsDatasettosameFile: H5Pset_copy_object failed");
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}
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//Perform copy function.
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try {
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H5.H5Ocopy(H5fid, "DSREF", H5fid, "CPYREFD", ocp_plist_id, HDF5Constants.H5P_DEFAULT);
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}
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catch(Exception ex) {
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try {H5.H5Pclose(ocp_plist_id);} catch (Exception exx) {}
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fail("testH5OcopyRefsDatasettosameFile: H5Ocopy failed");
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}
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//Open the dataset that has been copied
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try {
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did = H5.H5Dopen(H5fid, "DSREF", HDF5Constants.H5P_DEFAULT);
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assertTrue("testH5OcopyRefsDatasettosameFile.H5Dopen: ", did >= 0);
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}
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catch (Exception e) {
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try {H5.H5Dclose(did);} catch (Exception exx) {}
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e.printStackTrace();
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fail("testH5OcopyRefsDatasettosameFile: H5Dopen failed");
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}
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try {
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//Read the dataset object references in the read_data buffer.
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H5.H5Dread(did, HDF5Constants.H5T_STD_REF_OBJ, HDF5Constants.H5S_ALL,HDF5Constants.H5S_ALL, HDF5Constants.H5P_DEFAULT, read_data);
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System.arraycopy(read_data, 0, rbuf0, 0, 8);
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System.arraycopy(read_data, 8, rbuf1, 0, 8);
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//Get the type of object the reference points to.
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obj_type = H5.H5Rget_obj_type(H5fid, HDF5Constants.H5R_OBJECT, rbuf1);
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assertEquals(obj_type, HDF5Constants.H5O_TYPE_DATASET);
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obj_type = H5.H5Rget_obj_type(H5fid, HDF5Constants.H5R_OBJECT, rbuf0);
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assertEquals(obj_type, HDF5Constants.H5O_TYPE_GROUP);
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}
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catch (Exception ex) {
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ex.printStackTrace();
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}
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finally {
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try {H5.H5Dclose(did);} catch (Exception ex) {}
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try {H5.H5Pclose(ocp_plist_id);} catch (Exception ex) {}
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}
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}
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// @Ignore because of JIRA HDF5-9547
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// @Test(expected = HDF5LibraryException.class)
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// public void testH5OcopyInvalidRef() throws Throwable {
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// final long _pid_ = HDF5Constants.H5P_DEFAULT;
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// long sid = -1;
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// long did = -1;
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// long aid = -1;
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//
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// try {
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// sid = H5.H5Screate_simple(1, new long[] {1}, null);
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// assertTrue("testH5OcopyInvalidRef.H5Screate_simple: ", sid >= 0);
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// did = H5.H5Dcreate(H5fid, "Dataset_with_invalid_Ref", HDF5Constants.H5T_NATIVE_INT, sid, _pid_, _pid_, _pid_);
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// assertTrue("testH5OcopyInvalidRef.H5Dcreate: ", did > 0);
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// aid = H5.H5Acreate(did, "Invalid_Ref", HDF5Constants.H5T_STD_REF_OBJ, sid, _pid_, _pid_);
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// assertTrue("testH5OcopyInvalidRef.H5Acreate: ", aid > 0);
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// H5.H5Awrite(aid, HDF5Constants.H5T_STD_REF_OBJ, new long[]{-1});
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// }
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// catch (Exception ex) {
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// ex.printStackTrace();
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// }
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// finally {
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// try {H5.H5Dclose(did);} catch (Exception exx) {}
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// try {H5.H5Aclose(aid);} catch (Exception exx) {}
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// try {H5.H5Sclose(sid);} catch (Exception exx) {}
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// }
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//
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// long ocp_plist_id = H5.H5Pcreate(HDF5Constants.H5P_OBJECT_COPY);
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// assertTrue("testH5OcopyInvalidRef.H5Pcreate: ", ocp_plist_id >= 0);
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// H5.H5Pset_copy_object(ocp_plist_id, HDF5Constants.H5O_COPY_EXPAND_REFERENCE_FLAG);
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// try {
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// H5.H5Ocopy(H5fid, "/Dataset_with_invalid_Ref", H5fid, "/Dataset_with_invalid_Ref_cp", ocp_plist_id, _pid_);
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// }
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// finally {
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// try {H5.H5Pclose(ocp_plist_id);} catch (Exception exx) {}
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// }
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// }
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}
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