Nektar::LibUtilities::H5::DataSet Class Reference

#include <H5.h>

Inheritance diagram for Nektar::LibUtilities::H5::DataSet:

Public Member Functions
	~DataSet () override
DataSpaceSharedPtr	GetSpace () const
template<class T >
void	Write (const std::vector< T > &data)
template<class T >
void	Write (const std::vector< T > &data, DataSpaceSharedPtr filespace, PListSharedPtr dxpl=PList::Default())
template<class T >
void	Write (const std::vector< T > &data, DataSpaceSharedPtr filespace, DataTypeSharedPtr dt, PListSharedPtr dxpl=PList::Default())
void	WriteString (std::string s, DataSpaceSharedPtr filespace, DataTypeSharedPtr type, PListSharedPtr dxpl=PList::Default())
void	WriteVectorString (std::vector< std::string > s, DataSpaceSharedPtr filespace, DataTypeSharedPtr type, PListSharedPtr dxpl=PList::Default())
template<class T >
void	Read (std::vector< T > &data)
template<class T >
void	Read (std::vector< T > &data, DataSpaceSharedPtr filespace, PListSharedPtr dxpl=PList::Default())
template<class T >
void	Read (std::vector< T > &data, DataSpaceSharedPtr filespace, std::vector< std::vector< int > > &coords, PListSharedPtr dxpl=PList::Default())
void	ReadVectorString (std::vector< std::string > &data, DataSpaceSharedPtr filespace, PListSharedPtr dxpl=PList::Default())
Public Member Functions inherited from Nektar::LibUtilities::H5::CanHaveAttributes
AttributeSharedPtr	CreateAttribute (const std::string &name, DataTypeSharedPtr type, DataSpaceSharedPtr space)
AttributeSharedPtr	OpenAttribute (const std::string &name)
template<class T >
void	SetAttribute (const std::string &name, const T &value)
template<class T >
void	SetAttribute (const std::string &name, const std::vector< T > &value)
template<class T >
void	GetAttribute (const std::string &name, T &value)
template<class T >
void	GetAttribute (const std::string &name, std::vector< T > &value)
int	GetNumAttr () const
AttrIterator	attr_begin ()
AttrIterator	attr_end ()
Public Member Functions inherited from Nektar::LibUtilities::H5::Object
void	Close ()
hid_t	GetId () const
	operator hid_t () const

Protected Member Functions
void	v_Close () override
Protected Member Functions inherited from Nektar::LibUtilities::H5::Object
	Object ()
	Object (hid_t id)
virtual	~Object ()
virtual void	v_Close ()=0

Private Member Functions
	DataSet (hid_t id)

Friends
class	CanHaveGroupsDataSets

Additional Inherited Members
Protected Attributes inherited from Nektar::LibUtilities::H5::Object
hid_t	m_Id

Detailed Description

Definition at line 503 of file H5.h.

Constructor & Destructor Documentation

~DataSet()

Nektar::LibUtilities::H5::DataSet::~DataSet ( )

override

Definition at line 703 of file H5.cpp.

{
    Close();
}

References Nektar::LibUtilities::H5::Object::Close().

DataSet()

Nektar::LibUtilities::H5::DataSet::DataSet ( hid_t  id )

private

Definition at line 699 of file H5.cpp.

                         : Object(id)
{
}

Member Function Documentation

GetSpace()

DataSpaceSharedPtr Nektar::LibUtilities::H5::DataSet::GetSpace

(

)

const

Definition at line 714 of file H5.cpp.

{
    return DataSpaceSharedPtr(new DataSpace(H5Dget_space(m_Id)));
}

References Nektar::LibUtilities::H5::Object::m_Id.

Referenced by Read().

Read() [1/3]

template<class T >

void Nektar::LibUtilities::H5::DataSet::Read ( std::vector< T > &  data )

inline

Definition at line 558 of file H5.h.

    {
        DataTypeSharedPtr mem_t  = DataTypeTraits<T>::GetType();
        DataSpaceSharedPtr space = GetSpace();
        ASSERTL0(H5Sget_simple_extent_ndims(space->GetId()) == 1,
                 "vector data not 1D");
        hsize_t len, maxdim;
        H5Sget_simple_extent_dims(space->GetId(), &len, &maxdim);
 
        data.resize(len);
 
        H5_CALL(H5Dread, (m_Id, mem_t->GetId(), H5S_ALL, H5S_ALL, H5P_DEFAULT,
                          &data[0]));
    }

References ASSERTL0, GetSpace(), Nektar::LibUtilities::H5::DataTypeTraits< T >::GetType(), H5_CALL, and Nektar::LibUtilities::H5::Object::m_Id.

Read() [2/3]

template<class T >

void Nektar::LibUtilities::H5::DataSet::Read ( std::vector< T > &  data, DataSpaceSharedPtr  filespace, PListSharedPtr  dxpl = PList::Default()  )

inline

Definition at line 573 of file H5.h.

    {
        DataTypeSharedPtr mem_t = DataTypeTraits<T>::GetType();
        hsize_t len;
        len = H5Sget_select_npoints(filespace->GetId());
 
        data.resize(len);
 
        DataSpaceSharedPtr memspace = DataSpace::OneD(len);
        H5_CALL(H5Dread, (m_Id, mem_t->GetId(), memspace->GetId(),
                          filespace->GetId(), dxpl->GetId(), &data[0]));
    }

References Nektar::LibUtilities::H5::DataTypeTraits< T >::GetType(), H5_CALL, Nektar::LibUtilities::H5::Object::m_Id, and Nektar::LibUtilities::H5::DataSpace::OneD().

Read() [3/3]

template<class T >

void Nektar::LibUtilities::H5::DataSet::Read ( std::vector< T > &  data, DataSpaceSharedPtr  filespace, std::vector< std::vector< int > > &  coords, PListSharedPtr  dxpl = PList::Default()  )

inline

Definition at line 587 of file H5.h.

    {
        DataTypeSharedPtr mem_t = DataTypeTraits<T>::GetType();
        hsize_t len;
 
        int w = coords[0].size();
 
        hsize_t *cds = new hsize_t[coords.size() * w];
        for (int i = 0; i < coords.size(); i++)
        {
            for (int j = 0; j < coords[i].size(); j++)
            {
                cds[i * w + j] = hsize_t(coords[i][j]);
            }
        }
 
        H5Sselect_elements(filespace->GetId(), H5S_SELECT_SET, coords.size(),
                           cds);
 
        delete[] cds;
 
        len                         = H5Sget_select_npoints(filespace->GetId());
        DataSpaceSharedPtr memspace = DataSpace::OneD(len);
 
        data.resize(len);
 
        H5_CALL(H5Dread, (m_Id, mem_t->GetId(), memspace->GetId(),
                          filespace->GetId(), dxpl->GetId(), &data[0]));
 
        H5Sselect_all(filespace->GetId());
    }

References Nektar::LibUtilities::H5::DataTypeTraits< T >::GetType(), H5_CALL, Nektar::LibUtilities::H5::Object::m_Id, Nektar::LibUtilities::H5::DataSpace::OneD(), and Nektar::UnitTests::w().

ReadVectorString()

void Nektar::LibUtilities::H5::DataSet::ReadVectorString ( std::vector< std::string > &  data, DataSpaceSharedPtr  filespace, PListSharedPtr  dxpl = PList::Default()  )

inline

Definition at line 621 of file H5.h.

    {
        char **rdata;
        DataTypeSharedPtr tp      = DataType::String();
        std::vector<hsize_t> dims = filespace->GetDims();
        rdata                     = (char **)malloc(dims[0] * sizeof(char *));
 
        H5_CALL(H5Dread, (m_Id, tp->GetId(), H5S_ALL, filespace->GetId(),
                          dxpl->GetId(), rdata));
 
        for (int i = 0; i < dims[0]; i++)
        {
            data.push_back(std::string(rdata[i]));
        }
    }

References H5_CALL, Nektar::LibUtilities::H5::Object::m_Id, and Nektar::LibUtilities::H5::DataType::String().

v_Close()

void Nektar::LibUtilities::H5::DataSet::v_Close ( )

overrideprotectedvirtual

Implements Nektar::LibUtilities::H5::Object.

Definition at line 708 of file H5.cpp.

{
    H5_CALL(H5Dclose, (m_Id));
    m_Id = H5I_INVALID_HID;
}

References H5_CALL, and Nektar::LibUtilities::H5::Object::m_Id.

Write() [1/3]

template<class T >

void Nektar::LibUtilities::H5::DataSet::Write ( const std::vector< T > &  data )

inline

Definition at line 509 of file H5.h.

    {
        DataTypeSharedPtr mem_t = DataTypeTraits<T>::GetType();
        H5_CALL(H5Dwrite, (m_Id, mem_t->GetId(), H5S_ALL, H5S_ALL, H5P_DEFAULT,
                           &data[0]));
    }

References Nektar::LibUtilities::H5::DataTypeTraits< T >::GetType(), H5_CALL, and Nektar::LibUtilities::H5::Object::m_Id.

Write() [2/3]

template<class T >

void Nektar::LibUtilities::H5::DataSet::Write ( const std::vector< T > &  data, DataSpaceSharedPtr  filespace, DataTypeSharedPtr  dt, PListSharedPtr  dxpl = PList::Default()  )

inline

Definition at line 527 of file H5.h.

    {
        DataSpaceSharedPtr memspace = DataSpace::OneD(data.size());
 
        H5Dwrite(m_Id, dt->GetId(), memspace->GetId(), filespace->GetId(),
                 dxpl->GetId(), &data[0]);
    }

References Nektar::LibUtilities::H5::Object::m_Id, and Nektar::LibUtilities::H5::DataSpace::OneD().

Write() [3/3]

template<class T >

void Nektar::LibUtilities::H5::DataSet::Write ( const std::vector< T > &  data, DataSpaceSharedPtr  filespace, PListSharedPtr  dxpl = PList::Default()  )

inline

Definition at line 516 of file H5.h.

    {
        DataTypeSharedPtr mem_t     = DataTypeTraits<T>::GetType();
        DataSpaceSharedPtr memspace = DataSpace::OneD(data.size());
 
        H5_CALL(H5Dwrite, (m_Id, mem_t->GetId(), memspace->GetId(),
                           filespace->GetId(), dxpl->GetId(), &data[0]));
    }

References Nektar::LibUtilities::H5::DataTypeTraits< T >::GetType(), H5_CALL, Nektar::LibUtilities::H5::Object::m_Id, and Nektar::LibUtilities::H5::DataSpace::OneD().

WriteString()

void Nektar::LibUtilities::H5::DataSet::WriteString ( std::string  s, DataSpaceSharedPtr  filespace, DataTypeSharedPtr  type, PListSharedPtr  dxpl = PList::Default()  )

inline

Definition at line 536 of file H5.h.

    {
        H5_CALL(H5Dwrite, (m_Id, type->GetId(), H5S_ALL, filespace->GetId(),
                           dxpl->GetId(), s.c_str()));
    }

References H5_CALL, and Nektar::LibUtilities::H5::Object::m_Id.

WriteVectorString()

void Nektar::LibUtilities::H5::DataSet::WriteVectorString ( std::vector< std::string >  s, DataSpaceSharedPtr  filespace, DataTypeSharedPtr  type, PListSharedPtr  dxpl = PList::Default()  )

inline

Definition at line 544 of file H5.h.

    {
        const char **ret;
        ret = new const char *[s.size()];
        for (size_t i = 0; i < s.size(); ++i)
        {
            ret[i] = s[i].c_str();
        }
        H5Dwrite(m_Id, type->GetId(), H5S_ALL, filespace->GetId(),
                 dxpl->GetId(), ret);
    }

References Nektar::LibUtilities::H5::Object::m_Id.

Friends And Related Function Documentation

CanHaveGroupsDataSets

friend class CanHaveGroupsDataSets

friend

Definition at line 644 of file H5.h.