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package test.hdf5lib;
import static org.junit.Assert.assertEquals;
import static org.junit.Assert.assertTrue;
import static org.junit.Assert.fail;
import java.io.File;
import ncsa.hdf.hdf5lib.H5;
import ncsa.hdf.hdf5lib.HDF5Constants;
import ncsa.hdf.hdf5lib.exceptions.HDF5Exception;
import ncsa.hdf.hdf5lib.exceptions.HDF5LibraryException;
import org.junit.After;
import org.junit.Before;
import org.junit.Test;
public class TestH5Ocopy {
private static final String FILENAME = "testRefsattribute.h5";
private static final int DIM_X = 4;
private static final int DIM_Y = 6;
int H5fid = -1;
int H5dsid = -1;
int H5did1 = -1;
int H5did2 = -1;
int H5gcpl = -1;
int H5gid = -1;
int H5dsid2 = -1;
long[] dims = { 2 };
private final void _deleteFile(String filename) {
File file = new File(filename);
if (file.exists()) {
try {
file.delete();
}
catch (Exception e) {
e.printStackTrace();
}
}
}
private final int _createDataset(int fid, int dsid, String name, int dapl) {
int did = -1;
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 int _createGroup(int fid, String name) {
int gid = -1;
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;
}
@Before
public void createH5file()
throws NullPointerException, HDF5Exception {
assertTrue("H5 open ids is 0",H5.getOpenIDCount()==0);
try {
H5fid = H5.H5Fcreate(FILENAME, HDF5Constants.H5F_ACC_TRUNC,
HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
H5dsid2 = H5.H5Screate(HDF5Constants.H5S_SCALAR);
H5did1 = _createDataset(H5fid, H5dsid2, "DS2", HDF5Constants.H5P_DEFAULT);
H5dsid = H5.H5Screate_simple(1, dims, null);
H5gid = _createGroup(H5fid, "/G1");
H5did2 = _createDataset(H5gid, H5dsid, "DS1", 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 (H5did2 > 0)
try {H5.H5Dclose(H5did2);} catch (Exception ex) {}
if (H5dsid > 0)
try {H5.H5Sclose(H5dsid);} catch (Exception ex) {}
if (H5dsid2 > 0)
try {H5.H5Sclose(H5dsid2);} catch (Exception ex) {}
if (H5did1 > 0)
try {H5.H5Dclose(H5did1);} catch (Exception ex) {}
if (H5fid > 0)
try {H5.H5Fclose(H5fid);} catch (Exception ex) {}
_deleteFile(FILENAME);
}
@Test
public void testH5OcopyRefsAttr() {
int ocp_plist_id = -1;
byte rbuf0[]=null , rbuf1[] = null;
byte[] dset_data = new byte[16];
int attribute_id = -1;
try {
rbuf0 = H5.H5Rcreate(H5fid, "/G1", HDF5Constants.H5R_OBJECT, -1);
rbuf1 = H5.H5Rcreate(H5fid, "DS2", HDF5Constants.H5R_OBJECT, -1);
//System.arraycopy(rbuf0, 0, dset_data, 0, 8);
System.arraycopy(rbuf1, 0, dset_data, 8, 8);
attribute_id = H5.H5Acreate(H5did2, "A1", HDF5Constants.H5T_STD_REF_OBJ, H5dsid, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
H5.H5Awrite(attribute_id, HDF5Constants.H5T_STD_REF_OBJ, dset_data);
H5.H5Aclose(attribute_id);
}
catch (Exception ex) {
try {H5.H5Aclose(attribute_id);} catch (Exception exx) {}
fail("testH5OcopyRefsAttr: H5Ocopy failed");
}
try {
ocp_plist_id = H5.H5Pcreate(HDF5Constants.H5P_OBJECT_COPY);
H5.H5Pset_copy_object(ocp_plist_id, HDF5Constants.H5O_COPY_EXPAND_REFERENCE_FLAG);
H5.H5Ocopy(H5fid, ".", H5fid, "CPYREF", ocp_plist_id, HDF5Constants.H5P_DEFAULT);
}
catch (Exception ex) {
try {H5.H5Pclose(ocp_plist_id);} catch (Exception exx) {}
fail("testH5OcopyRefsAttr: H5Ocopy failed");
}
try {H5.H5Pclose(ocp_plist_id);} catch (Exception ex) {}
}
@Test
public void testH5OcopyRefsDatasettodiffFile() {
byte rbuf1[] = null;
byte[] dset_data = new byte[16];
int ocp_plist_id = -1;
int dataset_id = -1;
int H5fid2 = -1;
try{
rbuf1 = H5.H5Rcreate(H5fid, "DS2", HDF5Constants.H5R_OBJECT, -1);
System.arraycopy(rbuf1, 0, dset_data, 8, 8);
dataset_id = H5.H5Dcreate(H5fid, "DSREF",
HDF5Constants.H5T_STD_REF_OBJ, H5dsid,
HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
H5.H5Dwrite(dataset_id, HDF5Constants.H5T_STD_REF_OBJ,
HDF5Constants.H5S_ALL, HDF5Constants.H5S_ALL,
HDF5Constants.H5P_DEFAULT, dset_data);
H5.H5Dclose(dataset_id);
}
catch (Exception ex) {
try {H5.H5Dclose(dataset_id);} catch (Exception exx) {}
fail("testH5OcopyRefsDatasettodiffFile: H5Ocopy failed");
}
try {
//create new file
H5fid2 = H5.H5Fcreate("copy.h5", HDF5Constants.H5F_ACC_TRUNC,
HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
H5.H5Fflush(H5fid2, HDF5Constants.H5F_SCOPE_LOCAL);
}
catch (Exception ex) {
try {H5.H5Fclose(H5fid2);} catch (Exception exx) {}
fail("testH5OcopyRefsDatasettodiffFile: H5Ocopy failed");
}
try {
//create object copy property list id and set the flags.
ocp_plist_id = H5.H5Pcreate(HDF5Constants.H5P_OBJECT_COPY);
H5.H5Pset_copy_object(ocp_plist_id, HDF5Constants.H5O_COPY_EXPAND_REFERENCE_FLAG);
//Perform copy function.
H5.H5Ocopy(H5fid, ".", H5fid2, "CPYREFD", ocp_plist_id, HDF5Constants.H5P_DEFAULT);
}
catch (Exception ex){
ex.printStackTrace();
fail("testH5OcopyRefsDatasettodiffFile: H5Ocopy failed");
}
//Close file.
try {H5.H5Fclose(H5fid2);} catch (Exception ex) {}
try {H5.H5Pclose(ocp_plist_id);} catch (Exception ex) {}
}
@Test
public void testH5OcopyRefsDatasettosameFile() {
byte rbuf0[]=null , rbuf1[] = null;
byte[] dset_data = new byte[16];
int ocp_plist_id = -1;
int dataset_id = -1;
int did = -1;
int obj_type = -1;
int[] otype = { 1 };
byte[] read_data = new byte[16];
try {
rbuf0 = H5.H5Rcreate(H5fid, "/G1", HDF5Constants.H5R_OBJECT, -1);
rbuf1 = H5.H5Rcreate(H5fid, "DS2", HDF5Constants.H5R_OBJECT, -1);
System.arraycopy(rbuf0, 0, dset_data, 0, 8);
System.arraycopy(rbuf1, 0, dset_data, 8, 8);
//Create a dataset and write object references to it.
dataset_id = H5.H5Dcreate(H5fid, "DSREF",
HDF5Constants.H5T_STD_REF_OBJ, H5dsid,
HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
H5.H5Dwrite(dataset_id, HDF5Constants.H5T_STD_REF_OBJ,
HDF5Constants.H5S_ALL, HDF5Constants.H5S_ALL,
HDF5Constants.H5P_DEFAULT, dset_data);
//Close the dataset.
H5.H5Dclose(dataset_id);
}
catch (Exception ex) {
try {H5.H5Dclose(dataset_id);} catch (Exception exx) {}
fail("testH5OcopyRefsDatasettosameFile: H5Ocopy failed");
}
try {
ocp_plist_id = H5.H5Pcreate(HDF5Constants.H5P_OBJECT_COPY);
H5.H5Pset_copy_object(ocp_plist_id, HDF5Constants.H5O_COPY_EXPAND_REFERENCE_FLAG);
}
catch (Exception ex) {
try {H5.H5Pclose(ocp_plist_id);} catch (Exception exx) {}
fail("testH5OcopyRefsDatasettosameFile: H5Ocopy failed");
}
//Perform copy function.
try {
H5.H5Ocopy(H5fid, "DSREF", H5fid, "CPYREFD", ocp_plist_id, HDF5Constants.H5P_DEFAULT);
}
catch(Exception ex) {
try {H5.H5Pclose(ocp_plist_id);} catch (Exception exx) {}
fail("testH5OcopyRefsDatasettosameFile: H5Ocopy failed");
}
//Open the dataset that has been copied
try {
did = H5.H5Dopen(H5fid, "DSREF", HDF5Constants.H5P_DEFAULT);
}
catch (Exception e) {
e.printStackTrace();
}
try {
//Read the dataset object references in the read_data buffer.
H5.H5Dread(did, HDF5Constants.H5T_STD_REF_OBJ, HDF5Constants.H5S_ALL,HDF5Constants.H5S_ALL, HDF5Constants.H5P_DEFAULT, read_data);
System.arraycopy(read_data, 0, rbuf0, 0, 8);
System.arraycopy(read_data, 8, rbuf1, 0, 8);
//Get the type of object the reference points to.
obj_type = H5.H5Rget_obj_type(H5fid, HDF5Constants.H5R_OBJECT, rbuf1, otype);
assertEquals(obj_type, HDF5Constants.H5O_TYPE_DATASET);
obj_type = H5.H5Rget_obj_type(H5fid, HDF5Constants.H5R_OBJECT, rbuf0, otype);
assertEquals(obj_type, HDF5Constants.H5O_TYPE_GROUP);
//close the dataset
H5.H5Dclose(did);
}
catch (Exception ex) {
ex.printStackTrace();
}
try {H5.H5Dclose(did);} catch (Exception ex) {}
try {H5.H5Pclose(ocp_plist_id);} catch (Exception ex) {}
}
@Test
public void testH5OcopyInvalidRef() {
final int _pid_ = HDF5Constants.H5P_DEFAULT;
int sid = -1;
int did = -1;
int aid = -1;
try {
sid = H5.H5Screate_simple(1, new long[] {1}, null);
did = H5.H5Dcreate(H5fid, "Dataset_with_invalid_Ref", HDF5Constants.H5T_NATIVE_INT, sid, _pid_, _pid_, _pid_);
aid = H5.H5Acreate(did, "Invalid_Ref", HDF5Constants.H5T_STD_REF_OBJ, sid, _pid_, _pid_);
H5.H5Awrite(aid, HDF5Constants.H5T_STD_REF_OBJ, new long[]{-1});
H5.H5Dclose(did);
H5.H5Aclose(aid);
H5.H5Sclose(sid);
}
catch (Exception ex) {
try {H5.H5Dclose(did);} catch (Exception exx) {}
try {H5.H5Aclose(aid);} catch (Exception exx) {}
try {H5.H5Sclose(sid);} catch (Exception exx) {}
}
try {
int ocp_plist_id = H5.H5Pcreate(HDF5Constants.H5P_OBJECT_COPY);
H5.H5Pset_copy_object(ocp_plist_id, HDF5Constants.H5O_COPY_EXPAND_REFERENCE_FLAG);
try {
H5.H5Ocopy(H5fid, "/Dataset_with_invalid_Ref", H5fid, "/Dataset_with_invalid_Ref_cp", ocp_plist_id, _pid_);
} finally { H5.H5Pclose(ocp_plist_id);}
} catch (Exception ex) {}
}
}
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