void IO_UncertSimResults::ReadTable(DC_TableData& tableData)
{
ReadString(tableData.tableID, DC_TableData::tableIDLen);
ReadStringArray(tableData.columnDesc);
ReadStringArray(tableData.rowDesc);
ReadDoubleMatrix(tableData.dataTable);
}
void IO_ProfileSimResults::ReadOneRun(ProfileSimRunResults& runRes)
{
ReadString(runRes.runID, ProfileSimRunResults::runIDLen);
ReadStringArray(runRes.caseValDesc);
ReadStringArray(runRes.caseValShortDesc);
ReadStringArray(runRes.caseSeqData.sequenceIDs);
ReadDoubleArray(runRes.caseSeqData.sequenceStartTimes);
// next record contains case start records
ReadNextRecord();
SC_IntArray caseStartRecs;
ReadIntArray(caseStartRecs);
runRes.AllocAndSetSize(caseStartRecs.Size());
// individual case results
for (int i = 0; i < runRes.Size(); i++)
{
ReadAbsolute(caseStartRecs[i]);
ReadOneCase(runRes[i]);
}
}
bool IO_UncertSimResults::ReadFileHeader(DC_UncertSimResults& results,
bool leaveOpen)
{
try
{
OpenFile(fileName, true);
int dummy;
ReadStdFileHeader(fileHeader, StringLength(fileHeader) + 1, readVersion, dummy);
if (readVersion > writeVersion)
BufferError("Future version number ??");
ReadInt(nRuns);
results.uncertType = DC_UncertSimResults::UncertType(ReadInt());
if (readVersion > 0)
{
results.isMultipleRun = ReadBool();
if (results.isMultipleRun)
{
ReadString(results.resultID, results.resultIDLen);
ReadStringArray(results.multipleRunVariableIDs);
}
}
if (!leaveOpen)
CloseFile();
return true;
}
catch (BufFileC::BufferFileError& re) {
if (leaveOpen)
throw re;
}
CloseFile();
return false;
}
//-*****************************************************************************
void
ReadArray( void * iIntoLocation,
hid_t iParent,
const std::string &iName,
const AbcA::DataType &iDataType,
hid_t iType )
{
// Dispatch string stuff.
if ( iDataType.getPod() == kStringPOD )
{
return ReadStringArray( iIntoLocation, iParent, iName, iDataType );
}
else if ( iDataType.getPod() == kWstringPOD )
{
return ReadWstringArray( iIntoLocation, iParent, iName, iDataType );
}
assert( iDataType.getPod() != kStringPOD &&
iDataType.getPod() != kWstringPOD );
// Open the data set.
hid_t dsetId = H5Dopen( iParent, iName.c_str(), H5P_DEFAULT );
ABCA_ASSERT( dsetId >= 0, "Cannot open dataset: " << iName );
DsetCloser dsetCloser( dsetId );
// Read the data space.
hid_t dspaceId = H5Dget_space( dsetId );
ABCA_ASSERT( dspaceId >= 0, "Could not get dataspace for dataSet: "
<< iName );
DspaceCloser dspaceCloser( dspaceId );
// Read the data type.
hid_t dtypeId = H5Dget_type( dsetId );
ABCA_ASSERT( dtypeId >= 0, "Could not get datatype for dataSet: "
<< iName );
DtypeCloser dtypeCloser( dtypeId );
H5S_class_t dspaceClass = H5Sget_simple_extent_type( dspaceId );
if ( dspaceClass == H5S_SIMPLE )
{
// Get the dimensions
int rank = H5Sget_simple_extent_ndims( dspaceId );
ABCA_ASSERT( rank == 1,
"H5Sget_simple_extent_ndims() must be 1." );
hsize_t hdim = 0;
rank = H5Sget_simple_extent_dims( dspaceId, &hdim, NULL );
ABCA_ASSERT( hdim > 0,
"Degenerate dims in Dataset read" );
// And... read into it.
herr_t status = H5Dread( dsetId, iType,
H5S_ALL, H5S_ALL, H5P_DEFAULT,
iIntoLocation );
ABCA_ASSERT( status >= 0, "H5Dread() failed." );
}
else if ( dspaceClass != H5S_NULL )
{
ABCA_THROW( "Unexpected scalar dataspace encountered." );
}
}
//-*****************************************************************************
AbcA::ArraySamplePtr
ReadArray( AbcA::ReadArraySampleCachePtr iCache,
hid_t iParent,
const std::string &iName,
const AbcA::DataType &iDataType,
hid_t iFileType,
hid_t iNativeType )
{
// Dispatch string stuff.
if ( iDataType.getPod() == kStringPOD )
{
return ReadStringArray( iCache, iParent, iName, iDataType );
}
else if ( iDataType.getPod() == kWstringPOD )
{
return ReadWstringArray( iCache, iParent, iName, iDataType );
}
assert( iDataType.getPod() != kStringPOD &&
iDataType.getPod() != kWstringPOD );
// Open the data set.
hid_t dsetId = H5Dopen( iParent, iName.c_str(), H5P_DEFAULT );
ABCA_ASSERT( dsetId >= 0, "Cannot open dataset: " << iName );
DsetCloser dsetCloser( dsetId );
// Read the data space.
hid_t dspaceId = H5Dget_space( dsetId );
ABCA_ASSERT( dspaceId >= 0, "Could not get dataspace for dataSet: "
<< iName );
DspaceCloser dspaceCloser( dspaceId );
AbcA::ArraySample::Key key;
bool foundDigest = false;
// if we are caching, get the key and see if it is being used
if ( iCache )
{
key.origPOD = iDataType.getPod();
key.readPOD = key.origPOD;
key.numBytes = Util::PODNumBytes( key.readPOD ) *
H5Sget_simple_extent_npoints( dspaceId );
foundDigest = ReadKey( dsetId, "key", key );
AbcA::ReadArraySampleID found = iCache->find( key );
if ( found )
{
AbcA::ArraySamplePtr ret = found.getSample();
assert( ret );
if ( ret->getDataType().getPod() != iDataType.getPod() )
{
ABCA_THROW( "ERROR: Read data type for dset: " << iName
<< ": " << ret->getDataType()
<< " does not match expected data type: "
<< iDataType );
}
// Got it!
return ret;
}
}
// Okay, we haven't found it in a cache.
// Read the data type.
hid_t dtypeId = H5Dget_type( dsetId );
ABCA_ASSERT( dtypeId >= 0, "Could not get datatype for dataSet: "
<< iName );
DtypeCloser dtypeCloser( dtypeId );
ABCA_ASSERT( EquivalentDatatypes( iFileType, dtypeId ),
"File DataType clash for array dataset: "
<< iName );
AbcA::ArraySamplePtr ret;
H5S_class_t dspaceClass = H5Sget_simple_extent_type( dspaceId );
if ( dspaceClass == H5S_SIMPLE )
{
// Get the dimensions
int rank = H5Sget_simple_extent_ndims( dspaceId );
ABCA_ASSERT( rank == 1,
"H5Sget_simple_extent_ndims() must be 1." );
hsize_t hdim = 0;
rank = H5Sget_simple_extent_dims( dspaceId, &hdim, NULL );
Dimensions dims;
std::string dimName = iName + ".dims";
if ( H5Aexists( iParent, dimName.c_str() ) )
{
ReadDimensions( iParent, dimName, dims );
}
else
{
dims.setRank(1);
dims[0] = hdim / iDataType.getExtent();
}
ABCA_ASSERT( dims.numPoints() > 0,
"Degenerate dims in Dataset read" );
// Create a buffer into which we shall read.
ret = AbcA::AllocateArraySample( iDataType, dims );
assert( ret->getData() );
// And... read into it.
herr_t status = H5Dread( dsetId, iNativeType,
H5S_ALL, H5S_ALL, H5P_DEFAULT,
const_cast<void*>( ret->getData() ) );
ABCA_ASSERT( status >= 0, "H5Dread() failed." );
}
else if ( dspaceClass == H5S_NULL )
{
Dimensions dims;
std::string dimName = iName + ".dims";
if ( H5Aexists( iParent, dimName.c_str() ) )
{
ReadDimensions( iParent, dimName, dims );
ABCA_ASSERT( dims.rank() > 0,
"Degenerate rank in Dataset read" );
// Num points should be zero here.
ABCA_ASSERT( dims.numPoints() == 0,
"Expecting zero points in dimensions" );
}
else
{
dims.setRank(1);
dims[0] = 0;
}
ret = AbcA::AllocateArraySample( iDataType, dims );
}
else
{
ABCA_THROW( "Unexpected scalar dataspace encountered." );
}
// Store if there is a cache.
if ( foundDigest && iCache )
{
AbcA::ReadArraySampleID stored = iCache->store( key, ret );
if ( stored )
{
return stored.getSample();
}
}
// Otherwise, just leave! ArraySamplePtr returned by AllocateArraySample
// already has fancy-dan deleter built in.
// I REALLY LOVE SMART PTRS.
return ret;
}
