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Develop java newrefs fixes for obj ref datasets (#1354)

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Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com>
This commit is contained in:
Allen Byrne
2022-01-18 14:02:53 -06:00
committed by GitHub
parent 2f34c433dc
commit 8dc72928b8
3 changed files with 210 additions and 252 deletions
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101
java/test/TestH5Ocopy.java
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@@ -136,18 +136,16 @@ public class TestH5Ocopy {
@Test
public void testH5OcopyRefsAttr() {
long ocp_plist_id = HDF5Constants.H5I_INVALID_HID;
byte[][] dset_data = null;
byte[][] read_data = null;
byte[][] dset_data = new byte[2][HDF5Constants.H5R_REF_BUF_SIZE];
long attribute_id = HDF5Constants.H5I_INVALID_HID;
try {
dset_data = new byte[2][HDF5Constants.H5R_REF_BUF_SIZE];
try {
dset_data[0] = H5.H5Rcreate_object(H5fid, "/G1", HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5OcopyInvalidRef: H5Rcreate_object " + err);
fail("testH5OcopyRefsAttr: H5Rcreate_object " + err);
}
try {
@@ -155,7 +153,7 @@ public class TestH5Ocopy {
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5OcopyInvalidRef: H5Rcreate_object " + err);
fail("testH5OcopyRefsAttr: H5Rcreate_object " + err);
}
try {
@@ -196,25 +194,30 @@ public class TestH5Ocopy {
@Test
public void testH5OcopyRefsDatasettodiffFile() {
byte[][] dset_data = null;
byte[][] read_data = null;
byte[][] dset_data = new byte[2][HDF5Constants.H5R_REF_BUF_SIZE];
long ocp_plist_id = HDF5Constants.H5I_INVALID_HID;
long dataset_id = HDF5Constants.H5I_INVALID_HID;
long H5fid2 = HDF5Constants.H5I_INVALID_HID;
try {
dset_data = new byte[2][HDF5Constants.H5R_REF_BUF_SIZE];
try {
dset_data[0] = H5.H5Rcreate_object(H5fid, "/G1", HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5OcopyRefsDatasettodiffFile: H5Rcreate_object " + err);
}
try {
dset_data[1] = H5.H5Rcreate_object(H5fid, "DS2", HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5OcopyInvalidRef: H5Rcreate_object " + err);
fail("testH5OcopyRefsDatasettodiffFile: H5Rcreate_object " + err);
}
try {
dataset_id = H5.H5Dcreate(H5fid, "DSREF",
HDF5Constants.H5T_STD_REF_OBJ, H5dsid,
HDF5Constants.H5T_STD_REF, H5dsid,
HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT, HDF5Constants.H5P_DEFAULT);
assertTrue("testH5OcopyRefsDatasettodiffFile.H5Dcreate: ", dataset_id >= 0);
H5.H5Dwrite(dataset_id, HDF5Constants.H5T_STD_REF,
@@ -233,6 +236,7 @@ public class TestH5Ocopy {
ex.printStackTrace();
}
finally {
try {H5.H5Rdestroy(dset_data[0]);} catch (Exception ex) {}
try {H5.H5Rdestroy(dset_data[1]);} catch (Exception ex) {}
}
@@ -270,21 +274,20 @@ public class TestH5Ocopy {
@Test
public void testH5OcopyRefsDatasettosameFile() {
byte[][] dset_data = null;
byte[][] read_data = null;
byte[][] dset_data = new byte[2][HDF5Constants.H5R_REF_BUF_SIZE];
byte[][] read_data = new byte[2][HDF5Constants.H5R_REF_BUF_SIZE];
long ocp_plist_id = HDF5Constants.H5I_INVALID_HID;
long dataset_id = HDF5Constants.H5I_INVALID_HID;
long did = HDF5Constants.H5I_INVALID_HID;
int obj_type = -1;
try {
dset_data = new byte[2][HDF5Constants.H5R_REF_BUF_SIZE];
try {
dset_data[0] = H5.H5Rcreate_object(H5fid, "/G1", HDF5Constants.H5P_DEFAULT);
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5OcopyInvalidRef: H5Rcreate_object " + err);
fail("testH5OcopyRefsDatasettosameFile: H5Rcreate_object " + err);
}
try {
@@ -292,7 +295,7 @@ public class TestH5Ocopy {
}
catch (Throwable err) {
err.printStackTrace();
fail("testH5OcopyInvalidRef: H5Rcreate_object " + err);
fail("testH5OcopyRefsDatasettosameFile: H5Rcreate_object " + err);
}
try {
@@ -308,9 +311,11 @@ public class TestH5Ocopy {
H5.H5Dclose(dataset_id);
}
catch (Exception ex) {
try {H5.H5Dclose(dataset_id);} catch (Exception exx) {}
fail("testH5OcopyRefsDatasettosameFile: create dataset failed");
}
finally {
try {H5.H5Dclose(dataset_id);} catch (Exception exx) {}
}
}
catch (Exception ex) {
ex.printStackTrace();
@@ -324,49 +329,63 @@ public class TestH5Ocopy {
ocp_plist_id = H5.H5Pcreate(HDF5Constants.H5P_OBJECT_COPY);
assertTrue("testH5OcopyRefsDatasettosameFile.H5Pcreate: ", ocp_plist_id >= 0);
H5.H5Pset_copy_object(ocp_plist_id, HDF5Constants.H5O_COPY_EXPAND_REFERENCE_FLAG);
//Perform copy function.
try {
H5.H5Ocopy(H5fid, "DSREF", H5fid, "CPYREFD", ocp_plist_id, HDF5Constants.H5P_DEFAULT);
}
catch(Exception ex) {
fail("testH5OcopyRefsDatasettosameFile: H5Ocopy failed");
}
}
catch (Exception ex) {
try {H5.H5Pclose(ocp_plist_id);} catch (Exception exx) {}
fail("testH5OcopyRefsDatasettosameFile: H5Pset_copy_object failed");
}
//Perform copy function.
try {
H5.H5Ocopy(H5fid, "DSREF", H5fid, "CPYREFD", ocp_plist_id, HDF5Constants.H5P_DEFAULT);
}
catch(Exception ex) {
finally {
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);
assertTrue("testH5OcopyRefsDatasettosameFile.H5Dopen: ", did >= 0);
}
catch (Exception e) {
try {H5.H5Dclose(did);} catch (Exception exx) {}
e.printStackTrace();
fail("testH5OcopyRefsDatasettosameFile: H5Dopen failed");
}
try {
//Open the dataset that has been copied
try {
did = H5.H5Dopen(H5fid, "DSREF", HDF5Constants.H5P_DEFAULT);
assertTrue("testH5OcopyRefsDatasettosameFile.H5Dopen: ", did >= 0);
}
catch (Exception e) {
e.printStackTrace();
fail("testH5OcopyRefsDatasettosameFile: H5Dopen failed");
}
//Read the dataset object references in the read_data buffer.
H5.H5Dread(did, HDF5Constants.H5T_STD_REF, HDF5Constants.H5S_ALL,HDF5Constants.H5S_ALL, HDF5Constants.H5P_DEFAULT, read_data);
try {
H5.H5Dread(did, HDF5Constants.H5T_STD_REF, HDF5Constants.H5S_ALL,HDF5Constants.H5S_ALL, HDF5Constants.H5P_DEFAULT, read_data);
}
catch (Exception e) {
e.printStackTrace();
fail("testH5OcopyRefsDatasettosameFile: H5Dread failed");
}
}
catch (Exception ex) {
ex.printStackTrace();
fail("testH5OcopyRefsDatasettosameFile: open and read dataset failed");
}
finally {
try {H5.H5Dclose(did);} catch (Exception ex) {}
}
try {
//Get the type of object the reference points to.
obj_type = H5.H5Rget_obj_type(H5fid, HDF5Constants.H5R_OBJECT, read_data[1]);
obj_type = H5.H5Rget_obj_type3(read_data[1], HDF5Constants.H5R_OBJECT);
assertEquals(obj_type, HDF5Constants.H5O_TYPE_DATASET);
obj_type = H5.H5Rget_obj_type(H5fid, HDF5Constants.H5R_OBJECT, read_data[0]);
obj_type = H5.H5Rget_obj_type3(read_data[0], HDF5Constants.H5R_OBJECT);
assertEquals(obj_type, HDF5Constants.H5O_TYPE_GROUP);
}
catch (Exception ex) {
ex.printStackTrace();
}
finally {
try {H5.H5Dclose(did);} catch (Exception ex) {}
try {H5.H5Pclose(ocp_plist_id);} catch (Exception ex) {}
try {H5.H5Rdestroy(read_data[1]);} catch (Exception ex) {}
try {H5.H5Rdestroy(read_data[0]);} catch (Exception ex) {}
}
}