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https://github.com/triqs/dft_tools
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h5: add a parent in group
- add a parent in the group, to allow iteration on group elements - normally in h5, one needs to have the parent group and the name of the group to iterate on its elements. - added a parent (possibly empty) to get a simply syntax to get the element of a group...
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@ -27,11 +27,13 @@ namespace triqs { namespace h5 {
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* Rational : use ADL for h5_read/h5_write, catch and rethrow exception, add some policy for opening/creating
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*/
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class group {
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H5::Group _g;
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H5::Group _g, _parent;
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std::string _name_in_parent;
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public:
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group() = default;
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group( group const & ) = default;
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group (H5::Group g) : _g(g) {}
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group(group const &) = default;
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group(H5::Group g) : _g(g) {}
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group(H5::Group g, H5::Group parent, std::string name_in_parent) : _g(g), _parent(parent), _name_in_parent(name_in_parent) {}
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/// Takes the "/" group at the top of the file.
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group (H5::H5File f) : _g(f.openGroup("/")) {} // can not fail, right ?
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@ -42,6 +44,9 @@ namespace triqs { namespace h5 {
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if (is_group) { _g.setId(id_); }
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else { H5::H5File f; f.setId(id_); *this = group(f); }
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}
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bool has_parent() const { return _name_in_parent != "";}
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/// Write the triqs tag of the group if it is an object.
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template<typename T> void write_triqs_hdf5_data_scheme (T const & obj) {
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h5::write_string_attribute( &_g, "TRIQS_HDF5_data_scheme" , get_triqs_hdf5_data_scheme(obj).c_str() ) ;
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@ -56,7 +61,7 @@ namespace triqs { namespace h5 {
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group open_group(std::string const & key) const {
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if (!has_key(key)) TRIQS_RUNTIME_ERROR << "no subgroup "<<key <<" in the group";
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group res;
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try { res = _g.openGroup(key.c_str());}
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try { res = group( _g.openGroup(key.c_str()), _g, key) ;} // has a parent
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catch (H5::GroupIException const & e){ TRIQS_RUNTIME_ERROR << "Error in opening the subgroup "<< key <<"\n H5 error message : \n "<< e.getCDetailMsg(); }
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return res;
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}
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@ -75,7 +80,7 @@ namespace triqs { namespace h5 {
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*/
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group create_group(std::string const & key, bool delete_if_exists = true) const {
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unlink_key_if_exists(key);
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return _g.createGroup(key.c_str());
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return group(_g.createGroup(key.c_str()),_g, key);
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}
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/**
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* \brief Create a dataset.
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@ -95,9 +100,19 @@ namespace triqs { namespace h5 {
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/// Returns all names of subgroup of key in G
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std::vector<std::string> get_all_subgroup_names(std::string const & key) const;
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std::vector<std::string> get_all_subgroup_names() const {
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if (!has_parent()) TRIQS_RUNTIME_ERROR << "Group hdf5 : parent not found";
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return group(_parent).get_all_subgroup_names(_name_in_parent);
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}
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/// Returns all names of dataset of key in G
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std::vector<std::string> get_all_dataset_names(std::string const & key) const;
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std::vector<std::string> get_all_dataset_names() const {
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if (!has_parent()) TRIQS_RUNTIME_ERROR << "Group hdf5 : parent not found";
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return group(_parent).get_all_dataset_names(_name_in_parent);
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}
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void write_string_attribute (std::string const & obj_name, std::string const & attr_name, std::string const & value){
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herr_t err = H5LTset_attribute_string(_g.getId(),obj_name.c_str(),attr_name.c_str(), value.c_str() ) ;
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if (err<0) TRIQS_RUNTIME_ERROR << "Error in setting attribute of "<< obj_name<<" named "<< attr_name << " to " << value;
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