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/*******************************************************************/
/* XDMF */
/* eXtensible Data Model and Format */
/* */
/* Id : Id */
/* Date : $Date$ */
/* Version : $Revision$ */
/* */
/* Author: */
/* Jerry A. Clarke */
/* clarke@arl.army.mil */
/* US Army Research Laboratory */
/* Aberdeen Proving Ground, MD */
/* */
/* Copyright @ 2002 US Army Research Laboratory */
/* All Rights Reserved */
/* See Copyright.txt or http://www.arl.hpc.mil/ice for details */
/* */
/* This software is distributed WITHOUT ANY WARRANTY; without */
/* even the implied warranty of MERCHANTABILITY or FITNESS */
/* FOR A PARTICULAR PURPOSE. See the above copyright notice */
/* for more information. */
/* */
/*******************************************************************/
#include "XdmfObject.h"
#include "XdmfValuesHDF.h"
#include "XdmfHDF.h"
#include "XdmfDOM.h"
#include "XdmfDataStructure.h"
#include "XdmfArray.h"
namespace xdmf2
{
XdmfValuesHDF::XdmfValuesHDF() {
this->SetFormat(XDMF_FORMAT_HDF);
}
XdmfValuesHDF::~XdmfValuesHDF() {
}
XdmfArray *
XdmfValuesHDF::Read(XdmfArray *anArray){
XdmfArray *RetArray = anArray;
XdmfString DataSetName = 0;
XdmfHDF H5;
if(!this->DataDesc){
XdmfErrorMessage("DataDesc has not been set");
return(NULL);
}
H5.SetWorkingDirectory(this->DOM->GetWorkingDirectory());
XDMF_STRING_DUPLICATE(DataSetName, this->Get("CDATA"));
if(!DataSetName || strlen(DataSetName) < 1){
XdmfErrorMessage("Invalid HDF5 Dataset Name");
return(NULL);
}
XDMF_WORD_TRIM(DataSetName);
//! Possible Read from DSM. Make sure we're connected.
if(!this->DsmBuffer) this->SetDsmBuffer(anArray->GetDsmBuffer());
XdmfDebug("Opening HDF5 Data for Reading : " << DataSetName);
// Allocate Array if Necessary
if(!RetArray){
RetArray = new XdmfArray();
if(!RetArray){
XdmfErrorMessage("Error Allocating New Array");
return(NULL);
}
RetArray->CopyType(this->DataDesc);
RetArray->CopyShape(this->DataDesc);
RetArray->CopySelection(this->DataDesc);
RetArray->Allocate();
}
H5.SetDsmBuffer(this->DsmBuffer);
if( H5.Open( DataSetName, "r" ) == XDMF_FAIL ) {
XdmfErrorMessage("Can't Open Dataset " << DataSetName);
if(!anArray) delete RetArray;
RetArray = NULL;
}else{
if(this->DataDesc->GetSelectionSize() != H5.GetNumberOfElements() ){
// We're not reading the entire dataset
if( this->DataDesc->GetSelectionType() == XDMF_HYPERSLAB ){
XdmfInt32 Rank;
XdmfInt64 Start[ XDMF_MAX_DIMENSION ];
XdmfInt64 Stride[ XDMF_MAX_DIMENSION ];
XdmfInt64 Count[ XDMF_MAX_DIMENSION ];
// Select the HyperSlab from HDF5
Rank = this->DataDesc->GetHyperSlab( Start, Stride, Count );
H5.SelectHyperSlab( Start, Stride, Count );
if(RetArray->GetSelectionSize() < H5.GetSelectionSize()){
XdmfErrorMessage("Return Array No Large Enough to Hold Selected Data");
RetArray->SetShapeFromSelection(&H5);
}
// RetArray->SetShape(Rank, Count);
// RetArray->SelectAll();
} else {
XdmfInt64 NumberOfCoordinates;
XdmfInt64 *Coordinates;
// Select Parametric Coordinates from HDF5
NumberOfCoordinates = this->DataDesc->GetSelectionSize();
Coordinates = this->DataDesc->GetCoordinates();
RetArray->SetNumberOfElements(NumberOfCoordinates);
H5.SelectCoordinates(NumberOfCoordinates, Coordinates);
delete Coordinates;
}
}
XdmfDebug("Reading " << H5.GetSelectionSize() << " into Array of " << RetArray->GetSelectionSize() );
if( H5.Read(RetArray) == NULL ){
XdmfErrorMessage("Can't Read Dataset " << DataSetName);
if(!anArray) delete RetArray;
RetArray = NULL;
}else{
this->SetHeavyDataSetName(DataSetName);
}
H5.Close();
}
delete [] DataSetName;
return(RetArray);
}
XdmfInt32
XdmfValuesHDF::Write(XdmfArray *anArray, XdmfConstString aHeavyDataSetName){
char* hds;
XdmfHDF H5;
H5.SetWorkingDirectory(this->DOM->GetWorkingDirectory());
if(!aHeavyDataSetName) aHeavyDataSetName = this->GetHeavyDataSetName();
if(!aHeavyDataSetName){
if(anArray->GetHeavyDataSetName())
{
aHeavyDataSetName = (XdmfConstString)anArray->GetHeavyDataSetName();
}
else
{
static char FName[256];
sprintf(FName, "%s", this->DOM->GetOutputFileName());
char *ext = strstr(FName, ".xmf");
const char *NewExt = ".h5:/Data";
if (ext && ext < FName+(256-strlen(NewExt)))
{
sprintf(ext, "%s", NewExt);
aHeavyDataSetName = this->GetUniqueName(FName);
}
else
{
aHeavyDataSetName = this->GetUniqueName("Xdmf.h5:/Data");
}
}
}
// Possible Write to DSM. Make sure we're connected
if(!this->DsmBuffer) this->SetDsmBuffer(anArray->GetDsmBuffer());
XdmfDebug("Writing Values to " << aHeavyDataSetName);
if(!this->DataDesc ){
XdmfErrorMessage("DataDesc has not been set");
return(XDMF_FAIL);
}
if(!anArray){
XdmfErrorMessage("Array to Write is NULL");
return(XDMF_FAIL);
}
XDMF_STRING_DUPLICATE(hds, aHeavyDataSetName);
XDMF_WORD_TRIM( hds );
this->Set("CDATA", hds);
H5.SetCompression(anArray->GetCompression());
H5.CopyType(this->DataDesc);
H5.CopyShape(this->DataDesc);
H5.CopySelection(this->DataDesc);
H5.SetDsmBuffer(this->DsmBuffer);
if(H5.Open(hds, "rw") == XDMF_FAIL){
XdmfErrorMessage("Error Opening " << hds << " for Writing");
delete [] hds ;
return(XDMF_FAIL);
}
if(H5.Write(anArray) == XDMF_FAIL){
XdmfErrorMessage("Error Writing " << hds );
H5.Close();
delete [] hds;
return(XDMF_FAIL);
}
H5.Close();
delete [] hds;
return(XDMF_SUCCESS);
}
XdmfString XdmfValuesHDF::DataItemFromHDF(XdmfConstString H5DataSet){
XdmfHDF H5;
ostrstream StringOutput;
char *Ptr;
static XdmfString ReturnString = NULL;
if(H5.Open(H5DataSet, "r") == XDMF_FAIL){
XdmfErrorMessage("Can't open H5 Dataset " << H5DataSet << " for reading");
return(NULL);
}
StringOutput << "<DataItem NumberType=\"";
StringOutput << XdmfTypeToClassString(H5.GetNumberType());
StringOutput << "\" Precision=\"";
StringOutput << H5.GetElementSize();
StringOutput << "\" Dimensions=\"";
StringOutput << H5.GetShapeAsString();
StringOutput << "\">" << H5DataSet << "</DataItem>";
StringOutput << ends;
H5.Close();
if ( ReturnString != NULL ) delete [] ReturnString;
Ptr = StringOutput.str();
ReturnString = new char[strlen(Ptr) + 2 ];
strcpy( ReturnString, Ptr );
return(ReturnString);
}
}
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