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vtkHDFWriterImplementation.h
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1// SPDX-FileCopyrightText: Copyright (c) Ken Martin, Will Schroeder, Bill Lorensen
2// SPDX-License-Identifier: BSD-3-Clause
9
10#ifndef vtkHDFWriterImplementation_h
11#define vtkHDFWriterImplementation_h
12
13#include "vtkAbstractArray.h"
14#include "vtkCellArray.h"
15#include "vtkHDF5ScopedHandle.h"
16#include "vtkHDFWriter.h"
17#include "vtkType.h"
18#include "vtk_hdf5.h"
19
20#include <array>
21#include <string>
22
23VTK_ABI_NAMESPACE_BEGIN
24
26{
27public:
28 hid_t GetRoot() { return this->Root; }
29 hid_t GetFile() { return this->File; }
30 hid_t GetStepsGroup(hid_t currentGroup);
31
38 bool WriteHeader(hid_t group, const char* hdfType);
39
47 bool CreateFile(bool overwrite, const std::string& filename);
48
53 bool OpenFile();
54
60 void CloseFile();
61
67 bool OpenSubfile(const std::string& filename);
68
70
75 void SetSubFilesReady(bool status) { this->SubFilesReady = status; }
76 bool GetSubFilesReady() { return this->SubFilesReady; }
78
83
90 typedef struct
91 {
92 const char* hdfGroupName;
95
99 std::vector<PolyDataTopos> GetCellArraysForTopos(vtkPolyData* polydata);
100
101 // Creation utility functions
102
107 vtkHDF::ScopedH5DHandle CreateAndWriteHdfDataset(hid_t group, hid_t type, hid_t source_type,
108 const char* name, int rank, std::vector<hsize_t> dimensions, const void* data);
109
115 vtkHDF::ScopedH5SHandle CreateSimpleDataspace(int rank, const hsize_t dimensions[]);
116
121 vtkHDF::ScopedH5AHandle CreateScalarAttribute(hid_t group, const char* name, int value);
122
127 vtkHDF::ScopedH5AHandle CreateStringAttribute(
128 hid_t group, const char* name, const std::string& value);
129
135 vtkHDF::ScopedH5SHandle CreateUnlimitedSimpleDataspace(hsize_t numCols);
136
141 vtkHDF::ScopedH5GHandle CreateHdfGroup(hid_t group, const char* name);
142
147 vtkHDF::ScopedH5GHandle CreateHdfGroupWithLinkOrder(hid_t group, const char* name);
148
153 bool CreateSoftLink(hid_t group, const char* groupName, const char* targetLink);
154
160 hid_t group, const char* filename, const char* source, const char* targetLink);
161
165 vtkHDF::ScopedH5GHandle OpenExistingGroup(hid_t group, const char* name);
166
170 vtkHDF::ScopedH5DHandle OpenDataset(hid_t group, const char* name);
171
175 std::string GetGroupName(hid_t group);
176
181 vtkHDF::ScopedH5DHandle CreateHdfDataset(
182 hid_t group, const char* name, hid_t type, hid_t dataspace);
183
189 vtkHDF::ScopedH5DHandle CreateHdfDataset(
190 hid_t group, const char* name, hid_t type, int rank, const hsize_t dimensions[]);
191
199 bool CreateVirtualDataset(hid_t group, const char* name, hid_t type, int numComp);
200
202
209 bool WriteSumSteps(hid_t group, const char* name);
210 bool WriteSumStepsPolyData(hid_t group, const char* name);
212
218 vtkHDF::ScopedH5DHandle CreateChunkedHdfDataset(hid_t group, const char* name, hid_t type,
219 hid_t dataspace, hsize_t numCols, hsize_t chunkSize[], int compressionLevel = 0);
220
225 vtkHDF::ScopedH5SHandle CreateDataspaceFromArray(vtkAbstractArray* dataArray);
226
231 vtkHDF::ScopedH5DHandle CreateDatasetFromDataArray(
232 hid_t group, const char* name, hid_t type, vtkAbstractArray* dataArray);
233
235
239 vtkHDF::ScopedH5DHandle CreateSingleRowDataset(
240 hid_t group, const char* name, const std::vector<vtkIdType>& values);
242
248 bool InitDynamicDataset(hid_t group, const char* name, hid_t type, hsize_t cols,
249 hsize_t chunkSize[], int compressionLevel = 0);
250
258 hid_t dataset, const std::vector<vtkIdType>& value, bool offset, bool trim = false);
259
264 bool AddFieldDataSizeValueToDataset(hid_t dataset, vtkIdType* value, vtkIdType size, bool offset);
265
274 bool AddArrayToDataset(hid_t dataset, vtkAbstractArray* dataArray, int trim = 0);
275
281 bool AddOrCreateDataset(hid_t group, const char* name, hid_t type, vtkAbstractArray* dataArray);
282
290 bool AddOrCreateSingleRowDataset(hid_t group, const char* name,
291 const std::vector<vtkIdType>& value, bool offset = false, bool trim = false);
292
301 hid_t group, const char* name, vtkIdType* value, vtkIdType size, bool offset = false);
302
306 vtkHDF::ScopedH5GHandle GetSubfileNonNullPart(const std::string& blockPath, int& type);
307
314
315 Implementation(vtkHDFWriter* writer);
317
318private:
319 vtkHDFWriter* Writer;
320 vtkHDF::ScopedH5FHandle File;
321 vtkHDF::ScopedH5GHandle Root;
322 vtkHDF::ScopedH5GHandle StepsGroup;
323 std::vector<vtkHDF::ScopedH5FHandle> Subfiles;
324 std::vector<std::string> SubfileNames;
325 bool SubFilesReady = false;
326
327 const std::array<std::string, 4> PrimitiveNames = { { "Vertices", "Lines", "Polygons",
328 "Strips" } };
329
334 hsize_t GetNumberOfCellsSubfile(const std::string& basePath, std::size_t subfileId, hsize_t part,
335 bool isPolyData, const std::string& groupName);
336
342 char GetPrimitive(hid_t group);
343
351 hsize_t GetSubfileNumberOf(const std::string& base, const std::string& qualifier,
352 std::size_t subfileId, hsize_t part, char primitive = 0xff);
353
354 std::string GetBasePath(const std::string& fullPath);
355
359 bool DatasetAndGroupExist(const std::string& dataset, hid_t group);
360
366 bool GetSubFilesDatasetSize(
367 const std::string& datasetPath, const std::string& groupName, hsize_t& totalSize);
368
369 // Possible indexing mode of VTKHDF datasets. See `GetDatasetIndexationMode`
370 enum class IndexingMode
371 {
372 Points,
373 Cells,
374 Connectivity,
375 MetaData,
376 Undefined
377 };
378
386 IndexingMode GetDatasetIndexationMode(const std::string& path);
387};
388
389VTK_ABI_NAMESPACE_END
390#endif
391// VTK-HeaderTest-Exclude: vtkHDFWriterImplementation.h
Abstract superclass for all arrays.
object to represent cell connectivity
general representation of visualization data
bool AddOrCreateDataset(hid_t group, const char *name, hid_t type, vtkAbstractArray *dataArray)
Append the given array to the dataset with the given name, creating it if it does not exist yet.
bool GetSubFilesReady()
Inform the implementation that all the data has been written in subfiles, and that the virtual datase...
vtkHDF::ScopedH5AHandle CreateScalarAttribute(hid_t group, const char *name, int value)
Create a scalar integer attribute in the given group.
vtkHDF::ScopedH5GHandle CreateHdfGroup(hid_t group, const char *name)
Create a group in the given group from a dataspace.
vtkHDF::ScopedH5DHandle CreateAndWriteHdfDataset(hid_t group, hid_t type, hid_t source_type, const char *name, int rank, std::vector< hsize_t > dimensions, const void *data)
Create a dataset in the given group with the given parameters and write data to it Returned scoped ha...
hid_t GetStepsGroup(hid_t currentGroup)
vtkHDF::ScopedH5DHandle CreateDatasetFromDataArray(hid_t group, const char *name, hid_t type, vtkAbstractArray *dataArray)
Creates a dataset in the given group from a dataArray and write data to it Returned scoped handle may...
bool AddOrCreateFieldDataSizeValueDataset(hid_t group, const char *name, vtkIdType *value, vtkIdType size, bool offset=false)
Append a 2D integer value to the dataset with name FieldDataSize.
bool WriteSumSteps(hid_t group, const char *name)
For temporal multi-piece meta-files, write the dataset name in group group, which must be the "steps"...
bool CreateFile(bool overwrite, const std::string &filename)
Create the file from the filename and create the root VTKHDF group.
vtkHDF::ScopedH5GHandle CreateHdfGroupWithLinkOrder(hid_t group, const char *name)
Create a group that keeps track of link creation order Returned scoped handle may be invalid.
vtkHDF::ScopedH5DHandle OpenDataset(hid_t group, const char *name)
Open and return an existing dataset using its group id and dataset name.
vtkHDF::ScopedH5GHandle OpenExistingGroup(hid_t group, const char *name)
Open and return an existing group thanks to id and a relative or absolute path to this group.
bool OpenFile()
Open existing VTKHDF file and set Root and File members.
vtkHDF::ScopedH5DHandle CreateHdfDataset(hid_t group, const char *name, hid_t type, int rank, const hsize_t dimensions[])
Create a dataset in the given group It internally creates a dataspace from a rank and dimensions Retu...
vtkHDF::ScopedH5SHandle CreateDataspaceFromArray(vtkAbstractArray *dataArray)
Creates a dataspace to the exact array dimensions Returned scoped handle may be invalid.
bool AddFieldDataSizeValueToDataset(hid_t dataset, vtkIdType *value, vtkIdType size, bool offset)
Add a 2D value of integer type to an existing dataspace which represents the FieldDataSize.
vtkHDF::ScopedH5DHandle CreateSingleRowDataset(hid_t group, const char *name, const std::vector< vtkIdType > &values)
Creates a dataset and write a row of values to it.
Implementation(vtkHDFWriter *writer)
bool InitDynamicDataset(hid_t group, const char *name, hid_t type, hsize_t cols, hsize_t chunkSize[], int compressionLevel=0)
Create a chunked dataset with an empty extendable dataspace using chunking and set the desired level ...
bool CreateExternalLink(hid_t group, const char *filename, const char *source, const char *targetLink)
Create an external link to the real group containing the block dataset.
bool AddArrayToDataset(hid_t dataset, vtkAbstractArray *dataArray, int trim=0)
Append a full data array at the end of an existing infinite dataspace.
bool CreateSoftLink(hid_t group, const char *groupName, const char *targetLink)
Create a soft link to the real group containing the block dataset.
vtkHDF::ScopedH5DHandle CreateChunkedHdfDataset(hid_t group, const char *name, hid_t type, hid_t dataspace, hsize_t numCols, hsize_t chunkSize[], int compressionLevel=0)
Create a chunked dataset in the given group from a dataspace.
void CreateArraysFromNonNullPart(hid_t group, vtkDataObject *data)
Initialize empty data object array structures from a base group.
bool AddOrCreateSingleRowDataset(hid_t group, const char *name, const std::vector< vtkIdType > &value, bool offset=false, bool trim=false)
Append a single row of integer values to the dataset with name name in group group.
void CloseFile()
Close currently handled file, open using CreateFile or OpenFile.
vtkHDF::ScopedH5GHandle GetSubfileNonNullPart(const std::string &blockPath, int &type)
Find the first non null part for the given path in all subfiles.
vtkHDF::ScopedH5SHandle CreateUnlimitedSimpleDataspace(hsize_t numCols)
Create an unlimited HDF dataspace with a dimension of 0 * numCols.
vtkHDF::ScopedH5AHandle CreateStringAttribute(hid_t group, const char *name, const std::string &value)
Create a string attribute in the given group.
std::vector< PolyDataTopos > GetCellArraysForTopos(vtkPolyData *polydata)
Get the cell array for the POLY_DATA_TOPOS.
bool CreateStepsGroup(hid_t group)
Create the steps group in the given group.
bool WriteHeader(hid_t group, const char *hdfType)
Write version and type attributes to the root group A root must be open for the operation to succeed ...
std::string GetGroupName(hid_t group)
Return the name of a group given its id.
void SetSubFilesReady(bool status)
Inform the implementation that all the data has been written in subfiles, and that the virtual datase...
vtkHDF::ScopedH5SHandle CreateSimpleDataspace(int rank, const hsize_t dimensions[])
Create a HDF dataspace It is simple (not scalar or null) which means that it is an array of elements ...
vtkHDF::ScopedH5DHandle CreateHdfDataset(hid_t group, const char *name, hid_t type, hid_t dataspace)
Create a dataset in the given group from a dataspace Returned scoped handle may be invalid.
bool CreateVirtualDataset(hid_t group, const char *name, hid_t type, int numComp)
Create a virtual dataset from all the subfiles that have been added.
bool OpenSubfile(const std::string &filename)
Open subfile where data has already been written, and needs to be referenced by the main file using v...
bool AddSingleRowToDataset(hid_t dataset, const std::vector< vtkIdType > &value, bool offset, bool trim=false)
Add a single row of integer type to an existing dataspace.
bool WriteSumStepsPolyData(hid_t group, const char *name)
For temporal multi-piece meta-files, write the dataset name in group group, which must be the "steps"...
concrete dataset represents vertices, lines, polygons, and triangle strips
Stores a group name and the corresponding cell array.
boost::graph_traits< vtkGraph * >::vertex_descriptor source(boost::graph_traits< vtkGraph * >::edge_descriptor e, vtkGraph *)
@ Cells
A cell specified by degrees of freedom held in arrays.
int64_t hid_t
int vtkIdType
Definition vtkType.h:363