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package test.hdf5lib;
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 ncsa.hdf.hdf5lib.H5;
import ncsa.hdf.hdf5lib.HDF5Constants;
import ncsa.hdf.hdf5lib.callbacks.H5O_iterate_cb;
import ncsa.hdf.hdf5lib.callbacks.H5O_iterate_t;
import ncsa.hdf.hdf5lib.exceptions.HDF5Exception;
import ncsa.hdf.hdf5lib.exceptions.HDF5LibraryException;
import ncsa.hdf.hdf5lib.structs.H5O_info_t;
import org.junit.After;
import org.junit.Before;
import org.junit.Test;
public class TestH5Ocreate {
private static final String H5_EXTFILE = "test/hdf5lib/h5ex_g_iterate.hdf";
private static final String H5_FILE = "test.h5";
private static final int DIM_X = 4;
private static final int DIM_Y = 6;
int H5fcpl = -1;
int H5fid = -1;
int H5dsid = -1;
int H5did1 = -1;
int H5did2 = -1;
int H5gcpl = -1;
int H5gid = -1;
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 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;
}
private final void _createHardLink(int fid, int cid, String curname, int did, String dstname, int lcpl, int 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(int fid, String curname, int did, String dstname, int lcpl, int 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(int fid, String ext_filename, String curname, int did, String dstname, int lcpl, int 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);
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);
}
@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 Address ", obj_info.addr>0);
}
@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 Address ", obj_info.addr>0);
}
@Test
public void testH5Olink() {
int oid = -1;
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_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(int 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_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);
}
@Test
public void testH5Ocomment() {
int oid = -1;
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);
}
@Test
public void testH5Ocomment_clear() {
int oid = -1;
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);
}
@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);
}
@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);
}
}
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