Flow123d
JS_before_hm-62-ge56f9d5
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#include <msh_vtkreader.hh>
Public Types | |
enum | DataSections { points, cells, cell_data } |
Possible data sections in UnstructuredGrid - Piece node. More... | |
enum | DataFormat { ascii, binary_uncompressed, binary_zlib } |
Type of data formats - ascii, binary or compressed with zLib. More... | |
Public Member Functions | |
TYPEDEF_ERR_INFO (EI_VTKFile, std::string) | |
TYPEDEF_ERR_INFO (EI_ExpectedFormat, std::string) | |
TYPEDEF_ERR_INFO (EI_ErrMessage, std::string) | |
TYPEDEF_ERR_INFO (EI_SectionTypeName, std::string) | |
TYPEDEF_ERR_INFO (EI_TagType, std::string) | |
TYPEDEF_ERR_INFO (EI_TagName, std::string) | |
DECLARE_EXCEPTION (ExcInvalidFormat,<< "Invalid format of DataArray "<< EI_FieldName::val<< ", expected "<< EI_ExpectedFormat::val<< "\n"<< "in the input file: "<< EI_VTKFile::qval) | |
DECLARE_EXCEPTION (ExcUnknownFormat,<< "Unsupported or missing format of DataArray "<< EI_FieldName::val<< "\n"<< "in the input file: "<< EI_VTKFile::qval) | |
DECLARE_EXCEPTION (ExcWrongType,<< EI_ErrMessage::val<< " data type of "<< EI_SectionTypeName::val<< "\n"<< "in the input file: "<< EI_VTKFile::qval) | |
DECLARE_EXCEPTION (ExcIncompatibleMesh,<< "Incompatible meshes, "<< EI_ErrMessage::val<< "\n"<< "for VTK input file: "<< EI_VTKFile::qval) | |
DECLARE_EXCEPTION (ExcMissingTag,<< "Missing "<< EI_TagType::val<< " "<< EI_TagName::val<< "\n"<< " in the input file: "<< EI_VTKFile::qval) | |
DECLARE_EXCEPTION (ExcInvalidDofHandler,<< "Invalid DOF handler hash for field: "<< EI_FieldName::qval<< " in the input file: "<< EI_VTKFile::qval<< ".\n") | |
VtkMeshReader (const FilePath &file_name) | |
virtual | ~VtkMeshReader () |
Destructor. More... | |
void | read_physical_names (Mesh *mesh) override |
void | check_compatible_mesh (Mesh &mesh) override |
MeshDataHeader & | find_header (HeaderQuery &header_query) override |
Public Member Functions inherited from BaseMeshReader | |
TYPEDEF_ERR_INFO (EI_FieldName, std::string) | |
TYPEDEF_ERR_INFO (EI_Time, double) | |
TYPEDEF_ERR_INFO (EI_MeshFile, std::string) | |
TYPEDEF_ERR_INFO (EI_Type, std::string) | |
TYPEDEF_ERR_INFO (EI_TokenizerMsg, std::string) | |
TYPEDEF_ERR_INFO (EI_FileExtension, std::string) | |
DECLARE_INPUT_EXCEPTION (ExcFieldNameNotFound,<< "No data for field: "<< EI_FieldName::qval<< " and time: "<< EI_Time::val<< " in the input file: "<< EI_MeshFile::qval) | |
DECLARE_INPUT_EXCEPTION (ExcMissingFieldDiscretization,<< "Missing data type specification for field: "<< EI_FieldName::qval<< " and time: "<< EI_Time::val<< " in the input file: "<< EI_MeshFile::qval<< "\nPlease, add value of key 'input_discretization'.") | |
DECLARE_EXCEPTION (ExcWrongFormat,<< "Wrong format of "<< EI_Type::val<< ", "<< EI_TokenizerMsg::val<< "\n"<< "in the input file: "<< EI_MeshFile::qval) | |
DECLARE_EXCEPTION (ExcWrongExtension,<< "Unsupported extension "<< EI_FileExtension::qval<< " of the input file: "<< EI_MeshFile::qval) | |
BaseMeshReader (const FilePath &file_name) | |
Constructor. More... | |
void | read_raw_mesh (Mesh *mesh) |
template<typename T > | |
ElementDataCache< T >::ComponentDataPtr | get_element_data (unsigned int n_entities, unsigned int n_components, bool boundary_domain, unsigned int component_idx) |
std::vector< int > const & | get_element_vector (bool boundary_domain) |
CheckResult | scale_and_check_limits (string field_name, double coef, double default_val, double lower_bound=-std::numeric_limits< double >::max(), double upper_bound=std::numeric_limits< double >::max()) |
Protected Types | |
typedef std::multimap< std::string, MeshDataHeader > | HeaderTable |
Protected Types inherited from BaseMeshReader | |
typedef std::shared_ptr< ElementDataCacheBase > | ElementDataPtr |
typedef std::map< string, ElementDataPtr > | ElementDataFieldMap |
Protected Member Functions | |
VtkMeshReader (const FilePath &file_name, std::shared_ptr< ElementDataFieldMap > element_data_values, double time_step) | |
void | read_nodes (Mesh *mesh) |
void | read_elements (Mesh *mesh) |
void | create_node_element_caches () |
void | make_header_table () override |
Reads table of DataArray headers through pugixml interface. More... | |
MeshDataHeader | create_header (pugi::xml_node node, unsigned int n_entities, Tokenizer::Position pos, OutputTime::DiscreteSpace disc) |
Helper method that create DataArray header of given xml node (used from make_header_table ) More... | |
DataType | get_data_type (std::string type_str) |
Get DataType by value of string. More... | |
unsigned int | type_value_size (DataType data_type) |
Return size of value of data_type. More... | |
void | parse_ascii_data (ElementDataCacheBase &data_cache, unsigned int n_components, unsigned int n_entities, Tokenizer::Position pos, bool boundary_domain) |
Parse ascii data to data cache. More... | |
void | parse_binary_data (ElementDataCacheBase &data_cache, unsigned int n_components, unsigned int n_entities, Tokenizer::Position pos, bool boundary_domain) |
Parse binary data to data cache. More... | |
void | parse_compressed_data (ElementDataCacheBase &data_cache, unsigned int n_components, unsigned int n_entities, Tokenizer::Position pos, bool boundary_domain) |
Uncompress and parse binary compressed data to data cache. More... | |
void | read_base_vtk_attributes (pugi::xml_node vtk_node, unsigned int &n_nodes, unsigned int &n_elements) |
Set base attributes of VTK and get count of nodes and elements. More... | |
Tokenizer::Position | get_appended_position () |
Get position of AppendedData tag in VTK file. More... | |
void | read_element_data (ElementDataCacheBase &data_cache, MeshDataHeader actual_header, unsigned int n_components, bool boundary_domain) override |
bool | compare_points (const arma::vec3 &p1, const arma::vec3 &p2) |
Protected Member Functions inherited from BaseMeshReader | |
BaseMeshReader (const FilePath &file_name, std::shared_ptr< ElementDataFieldMap > element_data_values) | |
Constructor. More... | |
Protected Attributes | |
DataType | header_type_ |
header type of VTK file (only for appended data) More... | |
DataFormat | data_format_ |
variants of data format (ascii, appended, compressed appended) More... | |
HeaderTable | header_table_ |
Table with data of DataArray headers. More... | |
std::istream * | data_stream_ |
input stream allow read appended data, used only if this tag exists More... | |
unsigned int | n_read_ |
store count of read entities More... | |
double | time_step_ |
time of VTK file (getting only during initialization from PVD reader) More... | |
Protected Attributes inherited from BaseMeshReader | |
bool | has_compatible_mesh_ |
std::string | data_section_name_ |
Store name of field data section specify for type of mesh file. More... | |
std::shared_ptr< ElementDataFieldMap > | element_data_values_ |
Cache with last read element data. More... | |
Tokenizer | tok_ |
Tokenizer used for reading ASCII file format. More... | |
vector< LongIdx > | bulk_elements_id_ |
vector< LongIdx > | boundary_elements_id_ |
MeshDataHeader | actual_header_ |
Header of actual loaded data. More... | |
Static Protected Attributes | |
static const double | point_tolerance = 1E-10 |
Tolerance during comparison point data with GMSH nodes. More... | |
Friends | |
class | PvdMeshReader |
Additional Inherited Members | |
Static Public Member Functions inherited from BaseMeshReader | |
static std::shared_ptr< BaseMeshReader > | reader_factory (const FilePath &file_name) |
static Mesh * | mesh_factory (const Input::Record &input_mesh_rec) |
Definition at line 40 of file msh_vtkreader.hh.
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protected |
Map of DataArray sections in VTK file.
For each field_name contains MeshDataHeader.
Definition at line 114 of file msh_vtkreader.hh.
Type of data formats - ascii, binary or compressed with zLib.
Enumerator | |
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ascii | |
binary_uncompressed | |
binary_zlib |
Definition at line 70 of file msh_vtkreader.hh.
Possible data sections in UnstructuredGrid - Piece node.
Enumerator | |
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points | |
cells | |
cell_data |
Definition at line 65 of file msh_vtkreader.hh.
VtkMeshReader::VtkMeshReader | ( | const FilePath & | file_name | ) |
Construct the VTK format reader from given FilePath. This opens the file for reading.
Definition at line 67 of file msh_vtkreader.cc.
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virtual |
Destructor.
Definition at line 89 of file msh_vtkreader.cc.
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protected |
Special constructor of VTK files defined in PVD file. Constructor is called from PVD mesh reader.
Construct the VTK format reader from given FilePath and set shared map of element data values. This opens the file for reading.
Definition at line 78 of file msh_vtkreader.cc.
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overridevirtual |
Check if nodes and elements of VTK mesh is compatible with mesh
.
bulk_elements_id_
get_element_data
OBSOLETE method - will be replace with Mesh::check_compatible_mesh after merge fields!
Implements BaseMeshReader.
Definition at line 457 of file msh_vtkreader.cc.
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protected |
Compare two points representing by armadillo vector.
check_compatible_mesh
methodpoint_tolerance
parameter Definition at line 555 of file msh_vtkreader.cc.
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Helper method that create DataArray header of given xml node (used from make_header_table
)
Definition at line 157 of file msh_vtkreader.cc.
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create data caches of node and elements DataArray tags
Definition at line 623 of file msh_vtkreader.cc.
VtkMeshReader::DECLARE_EXCEPTION | ( | ExcInvalidFormat | , |
<< "Invalid format of DataArray "<< EI_FieldName::val<< " | , | ||
expected"<< EI_ExpectedFormat::val<< "\n"<< "in the input file:"<< EI_VTKFile::qval | |||
) |
VtkMeshReader::DECLARE_EXCEPTION | ( | ExcUnknownFormat | , |
<< "Unsupported or missing format of DataArray "<< EI_FieldName::val<< "\n"<< "in the input file: "<< EI_VTKFile::qval | |||
) |
VtkMeshReader::DECLARE_EXCEPTION | ( | ExcWrongType | , |
<< EI_ErrMessage::val<< " data type of "<< EI_SectionTypeName::val<< "\n"<< "in the input file: "<< EI_VTKFile::qval | |||
) |
VtkMeshReader::DECLARE_EXCEPTION | ( | ExcIncompatibleMesh | , |
<< "Incompatible | meshes, | ||
"<< EI_ErrMessage::val<< "\n"<< "for VTK input file:"<< EI_VTKFile::qval | |||
) |
VtkMeshReader::DECLARE_EXCEPTION | ( | ExcMissingTag | , |
<< "Missing "<< EI_TagType::val<< " "<< EI_TagName::val<< "\n"<< " in the input file: "<< EI_VTKFile::qval | |||
) |
VtkMeshReader::DECLARE_EXCEPTION | ( | ExcInvalidDofHandler | , |
<< "Invalid DOF handler hash for field: "<< EI_FieldName::qval<< " in the input file: "<< EI_VTKFile::qval<< ".\n" | |||
) |
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overridevirtual |
Find header of DataArray section of VTK file by field name given by header_query.
Implements BaseMeshReader.
Definition at line 261 of file msh_vtkreader.cc.
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Get position of AppendedData tag in VTK file.
Definition at line 127 of file msh_vtkreader.cc.
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Get DataType by value of string.
Definition at line 302 of file msh_vtkreader.cc.
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overrideprotectedvirtual |
Reads table of DataArray headers through pugixml interface.
Implements BaseMeshReader.
Definition at line 204 of file msh_vtkreader.cc.
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Parse ascii data to data cache.
Definition at line 370 of file msh_vtkreader.cc.
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Parse binary data to data cache.
Definition at line 389 of file msh_vtkreader.cc.
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Uncompress and parse binary compressed data to data cache.
Definition at line 404 of file msh_vtkreader.cc.
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Set base attributes of VTK and get count of nodes and elements.
Definition at line 96 of file msh_vtkreader.cc.
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overrideprotectedvirtual |
Implements BaseMeshReader::read_element_data
.
Implements BaseMeshReader.
Definition at line 339 of file msh_vtkreader.cc.
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protectedvirtual |
Method for reading of elements. Input of the mesh allows changing regions within the input file.
Implements BaseMeshReader.
Definition at line 590 of file msh_vtkreader.cc.
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protectedvirtual |
private method for reading of nodes
Implements BaseMeshReader.
Definition at line 568 of file msh_vtkreader.cc.
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overridevirtual |
Read regions from the VTK file and save the physical sections as regions in the RegionDB.
Region Labels starting with '!' are treated as boundary regions. Elements of these regions are used just to assign regions to the boundary and are not used in actual FEM computations.
Implements BaseMeshReader.
Definition at line 562 of file msh_vtkreader.cc.
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protected |
Return size of value of data_type.
Definition at line 330 of file msh_vtkreader.cc.
VtkMeshReader::TYPEDEF_ERR_INFO | ( | EI_VTKFile | , |
std::string | |||
) |
VtkMeshReader::TYPEDEF_ERR_INFO | ( | EI_ExpectedFormat | , |
std::string | |||
) |
VtkMeshReader::TYPEDEF_ERR_INFO | ( | EI_ErrMessage | , |
std::string | |||
) |
VtkMeshReader::TYPEDEF_ERR_INFO | ( | EI_SectionTypeName | , |
std::string | |||
) |
VtkMeshReader::TYPEDEF_ERR_INFO | ( | EI_TagType | , |
std::string | |||
) |
VtkMeshReader::TYPEDEF_ERR_INFO | ( | EI_TagName | , |
std::string | |||
) |
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friend |
Definition at line 41 of file msh_vtkreader.hh.
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variants of data format (ascii, appended, compressed appended)
Definition at line 191 of file msh_vtkreader.hh.
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input stream allow read appended data, used only if this tag exists
Definition at line 197 of file msh_vtkreader.hh.
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Table with data of DataArray headers.
Definition at line 194 of file msh_vtkreader.hh.
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header type of VTK file (only for appended data)
Definition at line 188 of file msh_vtkreader.hh.
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store count of read entities
Definition at line 200 of file msh_vtkreader.hh.
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staticprotected |
Tolerance during comparison point data with GMSH nodes.
Definition at line 185 of file msh_vtkreader.hh.
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protected |
time of VTK file (getting only during initialization from PVD reader)
Definition at line 203 of file msh_vtkreader.hh.