header file

[mohammadp1001]

How can I use these .hpp files with g++ compiler ?

[garrison]

There are examples at https://github.com/garrison/eigen3-hdf5#api

Do you have a more specific question or issue?

[mohammadp1001]

Yes, I saw them but when I try compile my code with g++ my compiler could not recognize .hpp header files .
Could you help me ?

[garrison]

Did you include the directory containing eigen3-hdf5? Typically I run something like

g++ -I/path/to/eigen3-hdf5 -o programname programname.cpp

[mohammadp1001]

I think it works for sparse matrix under some especial circumstance .
I got this error :
error This file requires compiler and library support for the ISO C++ 2011 standard. This support is currently experimental, and must be enabled with the -std=c++11 or -std=gnu++11 compiler options.

[garrison]

Oh yes, I also use the -std=c++11 flag.

[mohammadp1001]

Unfortunately I got new errors , do you have idea about it ?

In file included from /home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5-sparse.hpp:6:0,
from sparse_matrix_.cpp:13:
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:222:35: error: ‘H5Location’ in namespace ‘H5’ does not name a type
void save_scalar_attribute (const H5::H5Location &h5obj, const std::string &name, const T &value)
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:222:51: error: ISO C++ forbids declaration of ‘h5obj’ with no type [-fpermissive]
void save_scalar_attribute (const H5::H5Location &h5obj, const std::string &name, const T &value)
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp: In function ‘void EigenHDF5::save_scalar_attribute(const int&, const string&, const T&)’:
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:226:31: error: request for member ‘createAttribute’ in ‘h5obj’, which is of non-class type ‘const int’
H5::Attribute att = h5obj.createAttribute(name, *datatype, dataspace);
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp: At global scope:
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:231:42: error: ‘H5Location’ in namespace ‘H5’ does not name a type
inline void save_scalar_attribute (const H5::H5Location &h5obj, const std::string &name, const std::string &value)
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:231:58: error: ISO C++ forbids declaration of ‘h5obj’ with no type [-fpermissive]
inline void save_scalar_attribute (const H5::H5Location &h5obj, const std::string &name, const std::string &value)
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:250:28: error: ‘H5Location’ in namespace ‘H5’ does not name a type
void save_attribute (const H5::H5Location &h5obj, const std::string &name, const Eigen::EigenBase &mat)
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:250:44: error: ISO C++ forbids declaration of ‘h5obj’ with no type [-fpermissive]
void save_attribute (const H5::H5Location &h5obj, const std::string &name, const Eigen::EigenBase &mat)
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp: In function ‘void EigenHDF5::save_attribute(const int&, const string&, const Eigen::EigenBase&)’:
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:256:35: error: request for member ‘createAttribute’ in ‘h5obj’, which is of non-class type ‘const int’
H5::Attribute dataset = h5obj.createAttribute(name, *datatype, dataspace);
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp: At global scope:
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:311:28: error: ‘H5Location’ in namespace ‘H5’ does not name a type
void load_attribute (const H5::H5Location &h5obj, const std::string &name, const Eigen::DenseBase &mat)
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:311:44: error: ISO C++ forbids declaration of ‘h5obj’ with no type [-fpermissive]
void load_attribute (const H5::H5Location &h5obj, const std::string &name, const Eigen::DenseBase &mat)
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp: In function ‘void EigenHDF5::load_attribute(const int&, const string&, const Eigen::DenseBase&)’:
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:313:41: error: request for member ‘openAttribute’ in ‘h5obj’, which is of non-class type ‘const int’
const H5::Attribute dataset = h5obj.openAttribute(name);
^
In file included from sparse_matrix_.cpp:13:0:
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5-sparse.hpp: In instantiation of ‘void EigenHDF5::load_sparse(const H5::CommonFG&, const string&, SparseMatrixType&) [with SparseMatrixType = Eigen::SparseMatrix<long int, 1>; std::string = std::basic_string]’:
sparse_matrix_.cpp:70:49: required from here
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5-sparse.hpp:91:43: error: no matching function for call to ‘load_attribute(const H5::DataSet&, const char [6], Eigen::Matrix<int, 2, 1>&)’
load_attribute(dataset, "shape", shape);
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5-sparse.hpp:91:43: note: candidate is:
In file included from /home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5-sparse.hpp:6:0,
from sparse_matrix_.cpp:13:
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:311:6: note: template void EigenHDF5::load_attribute(const int&, const string&, const Eigen::DenseBase&)
void load_attribute (const H5::H5Location &h5obj, const std::string &name, const Eigen::DenseBase &mat)
^
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5.hpp:311:6: note: template argument deduction/substitution failed:
In file included from sparse_matrix_.cpp:13:0:
/home/mohammad/Documents/eigen3-hdf5/eigen3-hdf5-sparse.hpp:91:43: note: cannot convert ‘dataset’ (type ‘const H5::DataSet’) to type ‘const int&’
load_attribute(dataset, "shape", shape);
^

[garrison]

Are you using version 1.8.12 or higher of the HDF5 C++ library?

[mohammadp1001]

yes, it is 1.8.12

[mohammadp1001]

Sorry , it is 1.8.11

[garrison]

If you absolutely must use 1.8.11, try version f85a82b of eigen3-hdf5. This is the last commit before I began requiring 1.8.12.