#include <memory>#include <set>#include <string>#include <vector>#include <functional>#include <stdexcept>#include <sstream>#include <iostream>#include "../icedb/compat/gsl/gsl"#include "icedb_h5.h"#include "hdf5_load.h"#include "../icedb/fs.hpp"#include "../icedb/util.hpp"
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Namespaces | |
| icedb | |
| icedb::fs | |
| icedb::fs::hdf5 | |
Macros | |
| #define | INST_ATTR(y) |
| #define | ARRAYOFFSET(TYPE, INDEX) [](){TYPE a; return (size_t) &a[INDEX] - (size_t) &a; }() |
| Provides a method for calculating the offsets from std::arrays of data. More... | |
Typedefs | |
| typedef std::unique_ptr< H5::Group > | icedb::fs::hdf5::HDFgroup_t |
| typedef std::unique_ptr< H5::AtomType > | icedb::fs::hdf5::MatchAttributeTypeType |
| typedef std::unique_ptr< H5::DataSet > | icedb::fs::hdf5::HDFdataset_t |
Functions | |
| int | icedb::fs::hdf5::useZLIB () |
| void | icedb::fs::hdf5::useZLIB (int val) |
| std::set< std::string > | icedb::fs::hdf5::getGroupMembers (const ICEDB_H5_GETNUMOBJS_OWNER &base) |
| std::map< std::string, H5G_obj_t > | icedb::fs::hdf5::getGroupMembersTypes (const ICEDB_H5_GETNUMOBJS_OWNER &base) |
| HDFgroup_t | icedb::fs::hdf5::openOrCreateGroup (gsl::not_null< ICEDB_H5_GROUP_OWNER_PTR > base, gsl::not_null< const char *> name) |
| HDFgroup_t | icedb::fs::hdf5::openGroup (gsl::not_null< ICEDB_H5_GROUP_OWNER_PTR > base, gsl::not_null< const char *> name) |
| bool | icedb::fs::hdf5::groupExists (gsl::not_null< ICEDB_H5_GROUP_OWNER_PTR > base, gsl::not_null< const char *> name) |
| template<class DataType > | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< std::string > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< const char * > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< char > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< uint8_t > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< uint16_t > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< uint32_t > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< uint64_t > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< int8_t > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< int16_t > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< int32_t > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< int64_t > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< float > () |
| template<> | |
| MatchAttributeTypeType | icedb::fs::hdf5::MatchAttributeType< double > () |
| template<class DataType > | |
| bool | icedb::fs::hdf5::isStrType () |
| Check to see if output type is for a string. More... | |
| template<> | |
| bool | icedb::fs::hdf5::isStrType< std::string > () |
| template<> | |
| bool | icedb::fs::hdf5::isStrType< const char * > () |
| template<class DataType > | |
| void | icedb::fs::hdf5::insertAttr (const H5::Attribute &attr, gsl::not_null< H5::AtomType *> vls_type, const DataType &value) |
| Handles proper insertion of strings versus other data types. More... | |
| template<> | |
| void | icedb::fs::hdf5::insertAttr< std::string > (const H5::Attribute &attr, gsl::not_null< H5::AtomType *> vls_type, const std::string &value) |
| template<class DataType , class Container > | |
| void | icedb::fs::hdf5::addAttr (gsl::not_null< Container *> obj, gsl::not_null< const char *> attname, const DataType &value) |
| Convenient template to add an attribute of a variable type to a group or dataset. More... | |
| template<class DataType , class Container > | |
| void | icedb::fs::hdf5::addAttrArray (gsl::not_null< Container *> obj, gsl::not_null< const char *> attname, const std::vector< size_t > &dimensionality, const std::vector< DataType > &value) |
| Writes an array of objects. More... | |
| template<class DataType , class Container > | |
| void | icedb::fs::hdf5::addAttrVector (gsl::not_null< Container *> obj, gsl::not_null< const char *> attname, const std::vector< DataType > &data) |
| Writes a vector of objects. More... | |
| template<class DataType > | |
| void | icedb::fs::hdf5::loadAttr (const H5::Attribute &attr, gsl::not_null< H5::AtomType *> vls_type, DataType &value) |
| Handles proper insertion of strings versus other data types. More... | |
| template<> | |
| void | icedb::fs::hdf5::loadAttr< std::string > (const H5::Attribute &attr, gsl::not_null< H5::AtomType *> vls_type, std::string &value) |
| template<class DataType , class Container > | |
| void | icedb::fs::hdf5::readAttr (gsl::not_null< Container *> obj, gsl::not_null< const char *> attname, DataType &value) |
| Convenient template to read an attribute of a variable. More... | |
| template<class DataType , class Container > | |
| void | icedb::fs::hdf5::readAttrArray (gsl::not_null< Container *> obj, gsl::not_null< const char *> attname, std::vector< size_t > &dims, std::vector< DataType > &value) |
| Reads an array (or vector) of objects. More... | |
| template<class DataType , class Container > | |
| void | icedb::fs::hdf5::readAttrVector (gsl::not_null< Container *> obj, gsl::not_null< const char *> attname, std::vector< DataType > &value) |
| Reads an array (or vector) of objects. More... | |
| template<class Container > | |
| DataContainerType | icedb::fs::hdf5::getAttributeGroupingType (gsl::not_null< Container *> obj, gsl::not_null< const char *> attname) |
| template<class Container > | |
| std::vector< hsize_t > | icedb::fs::hdf5::getAttrArrayDimensionality (gsl::not_null< Container *> obj, gsl::not_null< const char *> attname) |
| bool | icedb::fs::hdf5::attrExists (gsl::not_null< H5::H5Object *> base, gsl::not_null< const char *> name) |
| std::pair< bool, bool > | icedb::fs::hdf5::symLinkExists (gsl::not_null< ICEDB_H5_GROUP_OWNER_PTR > base, gsl::not_null< const char *> name) |
| bool | icedb::fs::hdf5::datasetExists (gsl::not_null< ICEDB_H5_GROUP_OWNER_PTR > base, gsl::not_null< const char * > name) |
| Convenience function to check if a given dataset exists. More... | |
| template<class DataType , class Container > | |
| HDFdataset_t | icedb::fs::hdf5::addDatasetArray (gsl::not_null< Container *> obj, gsl::not_null< const char *> name, size_t rows, size_t cols, gsl::not_null< const DataType *> values, std::shared_ptr< H5::DSetCreatPropList > iplist=nullptr) |
| template<class DataType , class Container > | |
| HDFdataset_t | icedb::fs::hdf5::addDatasetArray (gsl::not_null< Container *> obj, gsl::not_null< const char *> name, size_t rows, gsl::not_null< const DataType *> values, std::shared_ptr< H5::DSetCreatPropList > iplist=nullptr) |
| template<class DataType , class Container > | |
| gsl::not_null< H5::DataSet * > | icedb::fs::hdf5::writeDatasetArray (const std::vector< size_t > &dimensions, gsl::not_null< H5::DataSet *> dset, gsl::not_null< const DataType *> values) |
| template<class DataType , class Container > | |
| HDFdataset_t | icedb::fs::hdf5::createDatasetRaw (gsl::not_null< Container *> parent, gsl::not_null< const char *> name, const std::vector< size_t > &dims, std::shared_ptr< H5::DSetCreatPropList > iplist=nullptr) |
| template<class Container > | |
| HDFdataset_t | icedb::fs::hdf5::readDatasetDimensions (gsl::not_null< Container *> obj, gsl::not_null< const char *> name, std::vector< size_t > &out) |
| void | icedb::fs::hdf5::readDatasetDimensions (gsl::not_null< H5::DataSet *> dataset, std::vector< size_t > &dims) |
| size_t | icedb::fs::hdf5::readDatasetNumDimensions (gsl::not_null< H5::DataSet *> dataset) |
| template<class DataType , class Container > | |
| HDFdataset_t | icedb::fs::hdf5::readDatasetArray (gsl::not_null< Container *> obj, gsl::not_null< const char *> name, gsl::not_null< DataType *> values) |
| template<class DataType , class Container > | |
| gsl::not_null< Container * > | icedb::fs::hdf5::readDatasetArray (gsl::not_null< Container *> dataset, gsl::not_null< DataType *> values) |
| template<class Container > | |
| void | icedb::fs::hdf5::addNames (gsl::not_null< Container *> obj, const std::string &prefix, size_t num, const std::function< std::string(int)> &s, size_t stride=0, size_t mCols=0) |
| Add column names to table. More... | |
| template<class Container > | |
| void | icedb::fs::hdf5::addColNames (gsl::not_null< Container *> obj, size_t num, const std::function< std::string(int)> &s, size_t stride=0, size_t mCols=0) |
| Add column names to table. More... | |
| std::shared_ptr< H5::DSetCreatPropList > | icedb::fs::hdf5::make_plist (size_t rows, size_t cols, bool compress=true) |
| Creates a property list with the compression + chunking as specified. More... | |
| std::vector< std::string > | icedb::fs::hdf5::explode (std::string const &s, char delim) |
| std::vector< std::string > | icedb::fs::hdf5::explodeHDF5groupPath (const std::string &s) |
| H5::Group | icedb::fs::hdf5::createGroupStructure (const std::string &groupName, ICEDB_H5_GROUP_OWNER &base) |
| H5::Group | icedb::fs::hdf5::createGroupStructure (const std::vector< std::string > &groups, ICEDB_H5_GROUP_OWNER &base) |
| unsigned int | icedb::fs::hdf5::getHDF5IOflags (fs::IOopenFlags flags) |
| template<class DataType > | |
| bool | icedb::fs::hdf5::isType (hid_t) |
| Functions to detect the type of data. More... | |
| template<class DataType , class Container > | |
| bool | icedb::fs::hdf5::isType (gsl::not_null< const Container *> obj, const std::string &attributeName) |
| template<class DataType , class Container > | |
| bool | icedb::fs::hdf5::isType (gsl::not_null< const Container *> obj) |
| template<> | |
| bool | icedb::fs::hdf5::isType< uint64_t > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< int64_t > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< uint32_t > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< int32_t > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< uint16_t > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< int16_t > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< uint8_t > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< int8_t > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< float > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< double > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< char > (hid_t type_id) |
| template<> | |
| bool | icedb::fs::hdf5::isType< std::string > (hid_t type_id) |
Macro Definition Documentation
◆ ARRAYOFFSET
| #define ARRAYOFFSET | ( | TYPE, | |
| INDEX | |||
| ) | [](){TYPE a; return (size_t) &a[INDEX] - (size_t) &a; }() |
Provides a method for calculating the offsets from std::arrays of data.
Definition at line 38 of file hdf5_supplemental.hpp.
◆ INST_ATTR
| #define INST_ATTR | ( | y | ) |
Value:
y(double); \
y(float); \
y(uint64_t); \
y(int64_t); \
y(uint32_t); \
y(int32_t); \
y(uint16_t); \
y(int16_t); \
y(uint8_t); \
y(int8_t); \
y(char); \
y(std::string);
Definition at line 17 of file hdf5_supplemental.hpp.
