Could someone please look at the code below and tell me what's wrong with it?
It creates a string dataset and attaches a string array attribute. But when I
read the attribute value back, I get only garbage. I also see garbage with
HDFView, so the bug is in writing, not reading. When I use integer data instead
of strings it works fine, BTW.
Thanks in advance,
Konrad.
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Konrad Hinsen
Centre de Biophysique Moléculaire, CNRS Orléans
Synchrotron Soleil - Division Expériences
Saint Aubin - BP 48
91192 Gif sur Yvette Cedex, France
Tel. +33-1 69 35 97 15
E-Mail: research AT khinsen DOT fastmail DOT net
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import ncsa.hdf.object.*; // the common object package
import ncsa.hdf.object.h5.*; // the HDF5 implementation
import java.util.List;
public class StringAttributeTest
{
private static String fname = "StringAttributeTest.h5";
public static void main( String args[] ) throws Exception
{
FileFormat fileFormat =
FileFormat.getFileFormat(FileFormat.FILE_TYPE_HDF5);
if (fileFormat == null)
{
System.err.println("Cannot find HDF5 FileFormat.");
return;
}
H5File testFile = (H5File)fileFormat.create(fname);
if (testFile == null)
{
System.err.println("Failed to create file:"+fname);
return;
}
testFile.open();
Group root =
(Group)((javax.swing.tree.DefaultMutableTreeNode)testFile.getRootNode()).getUserObject();
String[] data = {"abc de fghi jk lmn op qrst uvw xyz\n0 12 345 6 789"};
long[] data_dims = {1};
Datatype dtype = testFile.createDatatype(
Datatype.CLASS_STRING, data[0].length(),
Datatype.NATIVE, Datatype.NATIVE);
Dataset dataset = testFile.createScalarDS
("text", root, dtype, data_dims, null, null, 0, data);
long[] attr_dims = {3};
String[] attr_value = {"a", "ab", "abc"};
Datatype attr_dtype = testFile.createDatatype(
Datatype.CLASS_STRING, 5,
Datatype.NATIVE, Datatype.NATIVE);
Attribute attr = new Attribute("foo", attr_dtype, attr_dims);
attr.setValue(attr_value);
dataset.writeMetadata(attr);
testFile.close();
// read attributes back
testFile = (H5File)fileFormat.open(fname, FileFormat.READ);
if (testFile == null)
{
System.err.println("Failed to open file:"+fname);
return;
}
testFile.open();
root =
(Group)((javax.swing.tree.DefaultMutableTreeNode)testFile.getRootNode()).getUserObject();
dataset = (Dataset)root.getMemberList().get(0);
List attrList = dataset.getMetadata();
attr = (Attribute)attrList.get(0);
String[] value = (String [])attr.getValue();
System.out.println( attr.toString() );
System.out.println( value[0] );
System.out.println( value[1] );
System.out.println( value[2] );
testFile.close();
}
}
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