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hdf5/java/test/TestH5Obasic.java

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/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
* Copyright by The HDF Group. *
* Copyright by the Board of Trustees of the University of Illinois. *
* 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://support.hdfgroup.org/ftp/HDF5/releases. *
* 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.util.ArrayList;
import hdf.hdf5lib.H5;
import hdf.hdf5lib.HDF5Constants;
import hdf.hdf5lib.callbacks.H5O_iterate_cb;
import hdf.hdf5lib.callbacks.H5O_iterate_t;
import hdf.hdf5lib.exceptions.HDF5LibraryException;
import hdf.hdf5lib.structs.H5O_info_t;
import org.junit.After;
import org.junit.Before;
import org.junit.Rule;
import org.junit.Test;
import org.junit.rules.TestName;
public class TestH5Obasic {
@Rule public TestName testname = new TestName();
private static final String H5_FILE = "h5ex_g_iterateO1.hdf";
private static long H5la_ds1 = -1;
private static long H5la_l1 = -1;
private static long H5la_dt1 = -1;
private static long H5la_g1 = -1;
long H5fid = -1;
@Before
public void openH5file()
throws HDF5LibraryException, NullPointerException {
assertTrue("H5 open ids is 0",H5.getOpenIDCount()==0);
System.out.print(testname.getMethodName());
try {
H5fid = H5.H5Fopen(H5_FILE, HDF5Constants.H5F_ACC_RDONLY,
HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("H5.H5Fopen: openH5file: " + err);
}
}
@After
public void closeH5file() throws HDF5LibraryException {
if (H5fid > 0) {
try {H5.H5Fclose(H5fid);} catch (Exception ex) {}
}
System.out.println();
}
@Test(expected = HDF5LibraryException.class)
public void testH5Oopen_not_exists() throws Throwable {
long oid = -1;
oid = H5.H5Oopen(H5fid, "Never_created", HDF5Constants.H5P_DEFAULT);
try {H5.H5Oclose(oid);} catch (Exception ex) {}
}
@Test
public void testH5Oget_info_dataset() {
long oid = -1;
H5O_info_t 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);
}
assertFalse("H5Oget_info ",obj_info==null);
assertTrue("H5Oget_info object type",obj_info.type==HDF5Constants.H5O_TYPE_DATASET);
try {H5.H5Oclose(oid);} catch (Exception ex) {}
}
@Test
public void testH5Oget_info_hardlink() {
long oid = -1;
H5O_info_t obj_info = null;
try {
oid = H5.H5Oopen(H5fid, "L1", HDF5Constants.H5P_DEFAULT);
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("H5.H5Oget_info: " + err);
}
assertFalse("H5Oget_info ",obj_info==null);
assertTrue("H5Oget_info object type",obj_info.type==HDF5Constants.H5O_TYPE_DATASET);
try {H5.H5Oclose(oid);} catch (Exception ex) {}
}
@Test
public void testH5Oget_info_group() {
long oid = -1;
H5O_info_t obj_info = null;
try {
oid = H5.H5Oopen(H5fid, "G1", HDF5Constants.H5P_DEFAULT);
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("H5.H5Oget_info: " + err);
}
assertFalse("H5Oget_info ",obj_info==null);
assertTrue("H5Oget_info object type",obj_info.type==HDF5Constants.H5O_TYPE_GROUP);
try {H5.H5Oclose(oid);} catch (Exception ex) {}
}
@Test
public void testH5Oget_info_datatype() {
long oid = -1;
H5O_info_t obj_info = null;
try {
oid = H5.H5Oopen(H5fid, "DT1", HDF5Constants.H5P_DEFAULT);
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("H5.H5Oget_info: " + err);
}
assertFalse("H5Oget_info ",obj_info==null);
assertTrue("H5Oget_info object type",obj_info.type==HDF5Constants.H5O_TYPE_NAMED_DATATYPE);
try {H5.H5Oclose(oid);} catch (Exception ex) {}
}
@Test(expected = HDF5LibraryException.class)
public void testH5Oget_info_by_name_not_exist_name() throws Throwable {
H5.H5Oget_info_by_name(H5fid, "None", HDF5Constants.H5P_DEFAULT);
}
@Test(expected = HDF5LibraryException.class)
public void testH5Oget_info_by_name_not_exists() throws Throwable {
H5.H5Oget_info_by_name(H5fid, "Bogus", HDF5Constants.H5P_DEFAULT);
}
@Test
public void testH5Oget_info_by_name_dataset() {
H5O_info_t obj_info = null;
try {
obj_info = H5.H5Oget_info_by_name(H5fid, "DS1", HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("H5.H5Oget_info: " + err);
}
assertFalse("H5Oget_info ",obj_info==null);
assertTrue("H5Oget_info object type",obj_info.type==HDF5Constants.H5O_TYPE_DATASET);
}
@Test
public void testH5Oget_info_by_name_hardlink() {
H5O_info_t obj_info = null;
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 object type",obj_info.type==HDF5Constants.H5O_TYPE_DATASET);
}
@Test
public void testH5Oget_info_by_name_group() {
H5O_info_t obj_info = null;
try {
obj_info = H5.H5Oget_info_by_name(H5fid, "G1", HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("H5.H5Oget_info: " + err);
}
assertFalse("H5Oget_info ",obj_info==null);
assertTrue("H5Oget_info object type",obj_info.type==HDF5Constants.H5O_TYPE_GROUP);
}
@Test
public void testH5Oget_info_by_name_datatype() {
H5O_info_t obj_info = null;
try {
obj_info = H5.H5Oget_info_by_name(H5fid, "DT1", HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("H5.H5Oget_info: " + err);
}
assertFalse("H5Oget_info ",obj_info==null);
assertTrue("H5Oget_info object type",obj_info.type==HDF5Constants.H5O_TYPE_NAMED_DATATYPE);
}
@Test(expected = HDF5LibraryException.class)
public void testH5Oget_info_by_idx_name_not_exist_name() throws Throwable {
H5.H5Oget_info_by_idx(H5fid, "None", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_INC, 0, HDF5Constants.H5P_DEFAULT);
}
@Test(expected = HDF5LibraryException.class)
public void testH5Oget_info_by_idx_name_not_exist_create() throws Throwable {
H5.H5Oget_info_by_idx(H5fid, "None", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 0, HDF5Constants.H5P_DEFAULT);
}
@Test(expected = HDF5LibraryException.class)
public void testH5Oget_info_by_idx_not_exist_name() throws Throwable {
H5.H5Oget_info_by_idx(H5fid, "/", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_INC, 5, HDF5Constants.H5P_DEFAULT);
}
@Test(expected = HDF5LibraryException.class)
public void testH5Oget_info_by_idx_not_exist_create() throws Throwable {
H5.H5Oget_info_by_idx(H5fid, "/", HDF5Constants.H5_INDEX_CRT_ORDER, HDF5Constants.H5_ITER_INC, 5, HDF5Constants.H5P_DEFAULT);
}
@Test
public void testH5Oget_info_by_idx_n0() {
long oid = -1;
H5O_info_t obj_info = null;
try {
oid = H5.H5Oopen(H5fid, "DS1", HDF5Constants.H5P_DEFAULT);
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oget_info_by_idx_n0:H5.H5Oget_info: " + err);
}
H5la_ds1 = obj_info.addr;
try {H5.H5Oclose(oid);} catch (Exception ex) {}
try {
obj_info = H5.H5Oget_info_by_idx(H5fid, "/", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_INC, 0, HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oget_info_by_idx_n0:H5.H5Oget_info_by_idx: " + err);
}
assertFalse("testH5Oget_info_by_idx_n0:H5Oget_info_by_idx ",obj_info==null);
assertTrue("testH5Oget_info_by_idx_n0:H5Oget_info_by_idx link type",obj_info.type==HDF5Constants.H5O_TYPE_DATASET);
assertTrue("testH5Oget_info_by_idx_n0:Link Address ",obj_info.addr==H5la_ds1);
}
@Test
public void testH5Oget_info_by_idx_n3() {
long oid = -1;
H5O_info_t obj_info = null;
try {
oid = H5.H5Oopen(H5fid, "L1", HDF5Constants.H5P_DEFAULT);
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oget_info_by_idx_n3:H5.H5Oget_info: " + err);
}
H5la_l1 = obj_info.addr;
try {H5.H5Oclose(oid);} catch (Exception ex) {}
try {
obj_info = H5.H5Oget_info_by_idx(H5fid, "/", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_INC, 3, HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oget_info_by_idx_n3:H5.H5Oget_info_by_idx: " + err);
}
assertFalse("testH5Oget_info_by_idx_n3:H5Oget_info_by_idx ",obj_info==null);
assertTrue("testH5Oget_info_by_idx_n3:H5Oget_info_by_idx link type",obj_info.type==HDF5Constants.H5O_TYPE_DATASET);
assertTrue("testH5Oget_info_by_idx_n3:Link Address ",obj_info.addr==H5la_l1);
}
@Test
public void testH5Ovisit() {
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_t {
public ArrayList<idata> iterdata = new ArrayList<idata>();
}
H5O_iterate_t iter_data = new H5O_iter_data();
class H5O_iter_callback implements H5O_iterate_cb {
public int callback(long group, String name, H5O_info_t info, H5O_iterate_t op_data) {
idata id = new idata(name, info.type);
((H5O_iter_data)op_data).iterdata.add(id);
return 0;
}
}
H5O_iterate_cb iter_cb = new H5O_iter_callback();
try {
H5.H5Ovisit(H5fid, HDF5Constants.H5_INDEX_NAME, 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()==5);
assertTrue("H5Ovisit "+(((H5O_iter_data)iter_data).iterdata.get(0)).link_name,(((H5O_iter_data)iter_data).iterdata.get(0)).link_name.compareToIgnoreCase(".")==0);
assertTrue("H5Ovisit "+(((H5O_iter_data)iter_data).iterdata.get(1)).link_name,(((H5O_iter_data)iter_data).iterdata.get(1)).link_name.compareToIgnoreCase("DS1")==0);
assertTrue("H5Ovisit "+(((H5O_iter_data)iter_data).iterdata.get(2)).link_name,(((H5O_iter_data)iter_data).iterdata.get(2)).link_name.compareToIgnoreCase("DT1")==0);
assertTrue("H5Ovisit "+(((H5O_iter_data)iter_data).iterdata.get(3)).link_name,(((H5O_iter_data)iter_data).iterdata.get(3)).link_name.compareToIgnoreCase("G1")==0);
assertTrue("H5Ovisit "+(((H5O_iter_data)iter_data).iterdata.get(4)).link_name,(((H5O_iter_data)iter_data).iterdata.get(4)).link_name.compareToIgnoreCase("G1/DS2")==0);
// assertTrue("H5Ovisit "+((idata)((H5O_iter_data)iter_data).iterdata.get(5)).link_name,((idata)((H5O_iter_data)iter_data).iterdata.get(5)).link_name.compareToIgnoreCase("L1")==0);
}
@Test
public void testH5Ovisit_by_name() {
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_t {
public ArrayList<idata> iterdata = new ArrayList<idata>();
}
H5O_iterate_t iter_data = new H5O_iter_data();
class H5O_iter_callback implements H5O_iterate_cb {
public int callback(long group, String name, H5O_info_t info, H5O_iterate_t op_data) {
idata id = new idata(name, info.type);
((H5O_iter_data)op_data).iterdata.add(id);
return 0;
}
}
H5O_iterate_cb iter_cb = new H5O_iter_callback();
try {
H5.H5Ovisit_by_name(H5fid, "G1", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_INC, iter_cb, iter_data, HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("H5.H5Ovisit_by_name: " + err);
}
assertFalse("H5Ovisit_by_name ",((H5O_iter_data)iter_data).iterdata.isEmpty());
assertTrue("H5Ovisit_by_name "+((H5O_iter_data)iter_data).iterdata.size(),((H5O_iter_data)iter_data).iterdata.size()==2);
assertTrue("H5Ovisit_by_name "+(((H5O_iter_data)iter_data).iterdata.get(0)).link_name,(((H5O_iter_data)iter_data).iterdata.get(0)).link_name.compareToIgnoreCase(".")==0);
assertTrue("H5Ovisit_by_name "+(((H5O_iter_data)iter_data).iterdata.get(1)).link_name,(((H5O_iter_data)iter_data).iterdata.get(1)).link_name.compareToIgnoreCase("DS2")==0);
}
@Test
public void testH5Oexists_by_name() {
boolean name_exists = false;
try {
name_exists = H5.H5Oexists_by_name(H5fid, "G1", HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("H5.H5Oexists_by_name: " + err);
}
assertTrue("H5Oexists_by_name ", name_exists);
//TODO get dangling link result
}
@Test
public void testH5Oopen_by_addr() {
long oid = -1;
H5O_info_t obj_info = null;
try {
try {
oid = H5.H5Oopen(H5fid, "DS1", HDF5Constants.H5P_DEFAULT);
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oopen_by_addr: H5.H5Oget_info: " + err);
}
H5la_ds1 = obj_info.addr;
try {H5.H5Oclose(oid);} catch (Exception ex) {}
try {
oid = H5.H5Oopen_by_addr(H5fid, H5la_ds1);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oopen_by_addr: H5.H5Oopen_by_addr: " + err);
}
try {
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oopen_by_addr: H5.H5Oget_info: " + err);
}
assertFalse("testH5Oopen_by_addr: H5Oget_info ",obj_info==null);
assertTrue("testH5Oopen_by_addr: H5Oget_info link type",obj_info.type==HDF5Constants.H5O_TYPE_DATASET);
assertTrue("testH5Oopen_by_addr: Link Address ",obj_info.addr==H5la_ds1);
}
finally {
try{H5.H5Oclose(oid);} catch (Exception ex) {}
}
}
@Test
public void testH5Oopen_by_idx_n0() {
long oid = -1;
H5O_info_t obj_info = null;
try {
try {
oid = H5.H5Oopen(H5fid, "DS1", HDF5Constants.H5P_DEFAULT);
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oopen_by_idx_n0: H5.H5Oget_info: " + err);
}
H5la_ds1 = obj_info.addr;
try {H5.H5Oclose(oid);} catch (Exception ex) {}
try {
oid = H5.H5Oopen_by_idx(H5fid, "/", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_INC, 0, HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oopen_by_addr: H5.H5Oopen_by_addr: " + err);
}
try {
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oopen_by_idx_n0: H5.H5Oget_info_by_idx: " + err);
}
assertFalse("testH5Oopen_by_idx_n0: H5Oget_info_by_idx ",obj_info==null);
assertTrue("testH5Oopen_by_idx_n0: H5Oget_info_by_idx link type",obj_info.type==HDF5Constants.H5O_TYPE_DATASET);
assertTrue("testH5Oopen_by_idx_n0: Link Address ",obj_info.addr==H5la_ds1);
}
finally {
try{H5.H5Oclose(oid);} catch (Exception ex) {}
}
}
@Test
public void testH5Oopen_by_idx_n3() {
long oid = -1;
H5O_info_t obj_info = null;
try {
try {
oid = H5.H5Oopen(H5fid, "L1", HDF5Constants.H5P_DEFAULT);
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oopen_by_idx_n3:H5.H5Oget_info: " + err);
}
H5la_l1 = obj_info.addr;
try {H5.H5Oclose(oid);} catch (Exception ex) {}
try {
oid = H5.H5Oopen_by_idx(H5fid, "/", HDF5Constants.H5_INDEX_NAME, HDF5Constants.H5_ITER_INC, 3, HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oopen_by_addr: H5.H5Oopen_by_addr: " + err);
}
try {
obj_info = H5.H5Oget_info(oid);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5Oopen_by_idx_n3:H5.H5Oget_info_by_idx: " + err);
}
assertFalse("testH5Oopen_by_idx_n3:H5Oget_info_by_idx ",obj_info==null);
assertTrue("testH5Oopen_by_idx_n3:H5Oget_info_by_idx link type",obj_info.type==HDF5Constants.H5O_TYPE_DATASET);
assertTrue("testH5Oopen_by_idx_n3:Link Address ",obj_info.addr==H5la_l1);
}
finally {
try{H5.H5Oclose(oid);} catch (Exception ex) {}
}
}
}
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