2020-05-19 18:27:01 +00:00
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//============================================================================
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// Copyright (c) Kitware, Inc.
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// All rights reserved.
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// See LICENSE.txt for details.
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//
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// This software is distributed WITHOUT ANY WARRANTY; without even
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// the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
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// PURPOSE. See the above copyright notice for more information.
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//============================================================================
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#include <vtkm/io/VTKDataSetReaderBase.h>
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#include <vtkm/VecTraits.h>
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#include <vtkm/cont/ArrayCopy.h>
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#include <vtkm/cont/ArrayHandle.h>
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#include <vtkm/cont/ArrayHandleOffsetsToNumComponents.h>
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#include <vtkm/cont/ArrayPortalToIterators.h>
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#include <vtkm/cont/Logging.h>
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#include <vtkm/cont/UnknownArrayHandle.h>
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#include <algorithm>
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#include <string>
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#include <vector>
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namespace
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{
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inline void PrintVTKDataFileSummary(const vtkm::io::internal::VTKDataSetFile& df, std::ostream& out)
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{
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out << "\tFile: " << df.FileName << std::endl;
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out << "\tVersion: " << df.Version[0] << "." << df.Version[0] << std::endl;
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out << "\tTitle: " << df.Title << std::endl;
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out << "\tFormat: " << (df.IsBinary ? "BINARY" : "ASCII") << std::endl;
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out << "\tDataSet type: " << vtkm::io::internal::DataSetStructureString(df.Structure)
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<< std::endl;
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}
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2021-04-02 17:37:49 +00:00
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// Since Fields and DataSets store data in the default UnknownArrayHandle, convert
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// the data to the closest type supported by default. The following will
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// need to be updated if UnknownArrayHandle or TypeListCommon changes.
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template <typename T>
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struct ClosestCommonType
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{
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using Type = T;
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};
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template <>
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struct ClosestCommonType<vtkm::Int8>
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{
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using Type = vtkm::Int32;
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};
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template <>
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struct ClosestCommonType<vtkm::UInt8>
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{
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using Type = vtkm::Int32;
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};
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template <>
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struct ClosestCommonType<vtkm::Int16>
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{
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using Type = vtkm::Int32;
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};
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template <>
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struct ClosestCommonType<vtkm::UInt16>
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{
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using Type = vtkm::Int32;
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};
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template <>
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struct ClosestCommonType<vtkm::UInt32>
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{
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using Type = vtkm::Int64;
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};
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template <>
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struct ClosestCommonType<vtkm::UInt64>
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{
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using Type = vtkm::Int64;
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};
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template <typename T>
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struct ClosestFloat
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{
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using Type = T;
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};
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template <>
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struct ClosestFloat<vtkm::Int8>
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{
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using Type = vtkm::Float32;
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};
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template <>
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struct ClosestFloat<vtkm::UInt8>
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{
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using Type = vtkm::Float32;
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};
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template <>
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struct ClosestFloat<vtkm::Int16>
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{
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using Type = vtkm::Float32;
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};
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template <>
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struct ClosestFloat<vtkm::UInt16>
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{
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using Type = vtkm::Float32;
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};
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template <>
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struct ClosestFloat<vtkm::Int32>
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{
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using Type = vtkm::Float64;
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};
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template <>
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struct ClosestFloat<vtkm::UInt32>
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{
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using Type = vtkm::Float64;
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};
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template <>
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struct ClosestFloat<vtkm::Int64>
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{
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using Type = vtkm::Float64;
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};
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template <>
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struct ClosestFloat<vtkm::UInt64>
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{
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using Type = vtkm::Float64;
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};
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template <typename T>
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vtkm::cont::UnknownArrayHandle CreateUnknownArrayHandle(const std::vector<T>& vec)
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{
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switch (vtkm::VecTraits<T>::NUM_COMPONENTS)
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{
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case 1:
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{
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using CommonType = typename ClosestCommonType<T>::Type;
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constexpr bool not_same = !std::is_same<T, CommonType>::value;
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if (not_same)
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{
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VTKM_LOG_S(vtkm::cont::LogLevel::Info,
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"Type " << vtkm::io::internal::DataTypeName<T>::Name()
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<< " is currently unsupported. Converting to "
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<< vtkm::io::internal::DataTypeName<CommonType>::Name() << ".");
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}
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vtkm::cont::ArrayHandle<CommonType> output;
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output.Allocate(static_cast<vtkm::Id>(vec.size()));
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auto portal = output.WritePortal();
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for (vtkm::Id i = 0; i < output.GetNumberOfValues(); ++i)
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{
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portal.Set(i, static_cast<CommonType>(vec[static_cast<std::size_t>(i)]));
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}
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return vtkm::cont::UnknownArrayHandle(output);
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}
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case 2:
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case 3:
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case 9:
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{
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constexpr auto numComps = vtkm::VecTraits<T>::NUM_COMPONENTS;
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using InComponentType = typename vtkm::VecTraits<T>::ComponentType;
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using OutComponentType = typename ClosestFloat<InComponentType>::Type;
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using CommonType = vtkm::Vec<OutComponentType, numComps>;
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constexpr bool not_same = !std::is_same<T, CommonType>::value;
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if (not_same)
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{
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VTKM_LOG_S(vtkm::cont::LogLevel::Info,
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"Type " << vtkm::io::internal::DataTypeName<InComponentType>::Name() << "["
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<< vtkm::VecTraits<T>::GetNumberOfComponents(T()) << "] "
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<< "is currently unsupported. Converting to "
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<< vtkm::io::internal::DataTypeName<OutComponentType>::Name() << "["
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<< numComps << "].");
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}
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vtkm::cont::ArrayHandle<CommonType> output;
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output.Allocate(static_cast<vtkm::Id>(vec.size()));
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auto portal = output.WritePortal();
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for (vtkm::Id i = 0; i < output.GetNumberOfValues(); ++i)
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{
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CommonType outval = CommonType();
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for (vtkm::IdComponent j = 0; j < numComps; ++j)
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{
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outval[j] = static_cast<OutComponentType>(
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vtkm::VecTraits<T>::GetComponent(vec[static_cast<std::size_t>(i)], j));
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}
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portal.Set(i, outval);
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}
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return vtkm::cont::UnknownArrayHandle(output);
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}
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default:
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{
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VTKM_LOG_S(vtkm::cont::LogLevel::Warn, "Only 1, 2, 3, or 9 components supported. Skipping.");
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return vtkm::cont::UnknownArrayHandle(vtkm::cont::ArrayHandle<vtkm::Float32>());
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}
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}
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}
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} // anonymous namespace
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namespace vtkm
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{
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namespace io
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{
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VTKDataSetReaderBase::VTKDataSetReaderBase(const char* fileName)
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: DataFile(new internal::VTKDataSetFile)
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, DataSet()
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, Loaded(false)
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{
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this->DataFile->FileName = fileName;
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}
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VTKDataSetReaderBase::VTKDataSetReaderBase(const std::string& fileName)
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: DataFile(new internal::VTKDataSetFile)
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, DataSet()
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, Loaded(false)
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{
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this->DataFile->FileName = fileName;
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}
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2020-08-17 14:18:24 +00:00
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VTKDataSetReaderBase::~VTKDataSetReaderBase() {}
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const vtkm::cont::DataSet& VTKDataSetReaderBase::ReadDataSet()
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{
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if (!this->Loaded)
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{
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try
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{
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this->OpenFile();
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this->ReadHeader();
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this->Read();
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this->CloseFile();
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this->Loaded = true;
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}
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catch (std::ifstream::failure& e)
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{
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std::string message("IO Error: ");
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throw vtkm::io::ErrorIO(message + e.what());
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}
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}
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return this->DataSet;
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}
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void VTKDataSetReaderBase::PrintSummary(std::ostream& out) const
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{
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out << "VTKDataSetReader" << std::endl;
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PrintVTKDataFileSummary(*this->DataFile.get(), out);
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this->DataSet.PrintSummary(out);
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}
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void VTKDataSetReaderBase::ReadPoints()
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{
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std::string dataType;
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std::size_t numPoints;
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this->DataFile->Stream >> numPoints >> dataType >> std::ws;
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vtkm::cont::UnknownArrayHandle points =
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this->DoReadArrayVariant(vtkm::cont::Field::Association::Points, dataType, numPoints, 3);
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this->DataSet.AddCoordinateSystem(vtkm::cont::CoordinateSystem("coordinates", points));
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}
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void VTKDataSetReaderBase::ReadCells(vtkm::cont::ArrayHandle<vtkm::Id>& connectivity,
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vtkm::cont::ArrayHandle<vtkm::IdComponent>& numIndices)
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{
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if (this->DataFile->Version[0] < 5)
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{
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vtkm::Id numCells, numInts;
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this->DataFile->Stream >> numCells >> numInts >> std::ws;
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connectivity.Allocate(numInts - numCells);
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numIndices.Allocate(numCells);
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std::vector<vtkm::Int32> buffer(static_cast<std::size_t>(numInts));
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this->ReadArray(buffer);
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vtkm::Int32* buffp = buffer.data();
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auto connectivityPortal = connectivity.WritePortal();
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auto numIndicesPortal = numIndices.WritePortal();
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for (vtkm::Id i = 0, connInd = 0; i < numCells; ++i)
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{
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vtkm::IdComponent numInds = static_cast<vtkm::IdComponent>(*buffp++);
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numIndicesPortal.Set(i, numInds);
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for (vtkm::IdComponent j = 0; j < numInds; ++j, ++connInd)
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{
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connectivityPortal.Set(connInd, static_cast<vtkm::Id>(*buffp++));
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}
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}
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}
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else
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{
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vtkm::Id offsetsSize, connSize;
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this->DataFile->Stream >> offsetsSize >> connSize >> std::ws;
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std::string tag, dataType;
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this->DataFile->Stream >> tag >> dataType >> std::ws;
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internal::parseAssert(tag == "OFFSETS");
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auto offsets =
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this->DoReadArrayVariant(vtkm::cont::Field::Association::Any, dataType, offsetsSize, 1);
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offsets.CastAndCallForTypes<vtkm::List<vtkm::Int64, vtkm::Int32>,
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vtkm::List<vtkm::cont::StorageTagBasic>>(
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[&](const auto& offsetsAH) {
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2022-01-20 17:27:29 +00:00
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// Convert on host. There will be several other passes of this array on the host anyway.
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numIndices.Allocate(offsetsSize - 1);
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auto offsetPortal = offsetsAH.ReadPortal();
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auto numIndicesPortal = numIndices.WritePortal();
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for (vtkm::Id cellIndex = 0; cellIndex < offsetsSize - 1; ++cellIndex)
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{
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numIndicesPortal.Set(cellIndex,
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static_cast<vtkm::IdComponent>(offsetPortal.Get(cellIndex + 1) -
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offsetPortal.Get(cellIndex)));
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}
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});
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this->DataFile->Stream >> tag >> dataType >> std::ws;
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internal::parseAssert(tag == "CONNECTIVITY");
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auto conn =
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this->DoReadArrayVariant(vtkm::cont::Field::Association::Any, dataType, connSize, 1);
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2021-07-15 14:53:52 +00:00
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vtkm::cont::ArrayCopyShallowIfPossible(conn, connectivity);
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}
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}
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void VTKDataSetReaderBase::ReadShapes(vtkm::cont::ArrayHandle<vtkm::UInt8>& shapes)
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{
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std::string tag;
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vtkm::Id numCells;
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this->DataFile->Stream >> tag >> numCells >> std::ws;
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internal::parseAssert(tag == "CELL_TYPES");
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shapes.Allocate(numCells);
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std::vector<vtkm::Int32> buffer(static_cast<std::size_t>(numCells));
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this->ReadArray(buffer);
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2020-09-02 16:56:31 +00:00
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vtkm::Int32* buffp = buffer.data();
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2020-05-19 18:27:01 +00:00
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auto shapesPortal = shapes.WritePortal();
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for (vtkm::Id i = 0; i < numCells; ++i)
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{
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shapesPortal.Set(i, static_cast<vtkm::UInt8>(*buffp++));
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}
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}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadAttributes()
|
|
|
|
{
|
|
|
|
if (this->DataFile->Stream.eof())
|
|
|
|
{
|
|
|
|
return;
|
|
|
|
}
|
|
|
|
|
2022-03-17 17:02:37 +00:00
|
|
|
vtkm::cont::Field::Association association = vtkm::cont::Field::Association::Any;
|
2020-05-19 18:27:01 +00:00
|
|
|
std::size_t size;
|
|
|
|
|
|
|
|
std::string tag;
|
|
|
|
this->DataFile->Stream >> tag;
|
|
|
|
while (!this->DataFile->Stream.eof())
|
|
|
|
{
|
|
|
|
if (tag == "POINT_DATA")
|
|
|
|
{
|
2022-03-17 17:02:37 +00:00
|
|
|
association = vtkm::cont::Field::Association::Points;
|
2020-05-19 18:27:01 +00:00
|
|
|
}
|
|
|
|
else if (tag == "CELL_DATA")
|
|
|
|
{
|
2022-03-17 17:02:37 +00:00
|
|
|
association = vtkm::cont::Field::Association::Cells;
|
2020-05-19 18:27:01 +00:00
|
|
|
}
|
2021-05-11 15:40:19 +00:00
|
|
|
else if (tag == "FIELD") // can see field in this position also
|
|
|
|
{
|
|
|
|
this->ReadGlobalFields(nullptr);
|
|
|
|
this->DataFile->Stream >> tag;
|
|
|
|
continue;
|
|
|
|
}
|
2020-05-19 18:27:01 +00:00
|
|
|
else
|
|
|
|
{
|
|
|
|
internal::parseAssert(false);
|
|
|
|
}
|
|
|
|
|
|
|
|
this->DataFile->Stream >> size;
|
|
|
|
while (!this->DataFile->Stream.eof())
|
|
|
|
{
|
|
|
|
this->DataFile->Stream >> tag;
|
|
|
|
if (tag == "SCALARS")
|
|
|
|
{
|
|
|
|
this->ReadScalars(association, size);
|
|
|
|
}
|
|
|
|
else if (tag == "COLOR_SCALARS")
|
|
|
|
{
|
|
|
|
this->ReadColorScalars(association, size);
|
|
|
|
}
|
|
|
|
else if (tag == "LOOKUP_TABLE")
|
|
|
|
{
|
|
|
|
this->ReadLookupTable();
|
|
|
|
}
|
|
|
|
else if (tag == "VECTORS" || tag == "NORMALS")
|
|
|
|
{
|
|
|
|
this->ReadVectors(association, size);
|
|
|
|
}
|
|
|
|
else if (tag == "TEXTURE_COORDINATES")
|
|
|
|
{
|
|
|
|
this->ReadTextureCoordinates(association, size);
|
|
|
|
}
|
|
|
|
else if (tag == "TENSORS")
|
|
|
|
{
|
|
|
|
this->ReadTensors(association, size);
|
|
|
|
}
|
|
|
|
else if (tag == "FIELD")
|
|
|
|
{
|
|
|
|
this->ReadFields(association, size);
|
|
|
|
}
|
2021-05-12 20:35:16 +00:00
|
|
|
else if (tag == "GLOBAL_IDS" || tag == "PEDIGREE_IDS")
|
|
|
|
{
|
|
|
|
this->ReadGlobalOrPedigreeIds(association, size);
|
|
|
|
}
|
2020-05-19 18:27:01 +00:00
|
|
|
else
|
|
|
|
{
|
|
|
|
break;
|
|
|
|
}
|
|
|
|
}
|
|
|
|
}
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::CloseFile()
|
|
|
|
{
|
|
|
|
this->DataFile->Stream.close();
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::OpenFile()
|
|
|
|
{
|
|
|
|
this->DataFile->Stream.exceptions(std::ifstream::failbit | std::ifstream::badbit);
|
|
|
|
try
|
|
|
|
{
|
|
|
|
this->DataFile->Stream.open(this->DataFile->FileName.c_str(),
|
|
|
|
std::ios_base::in | std::ios_base::binary);
|
|
|
|
}
|
|
|
|
catch (std::ifstream::failure&)
|
|
|
|
{
|
|
|
|
std::string message("could not open file \"" + this->DataFile->FileName + "\"");
|
|
|
|
throw vtkm::io::ErrorIO(message);
|
|
|
|
}
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadHeader()
|
|
|
|
{
|
|
|
|
char vstring[] = "# vtk DataFile Version";
|
|
|
|
const std::size_t vlen = sizeof(vstring);
|
|
|
|
|
|
|
|
// Read version line
|
|
|
|
char vbuf[vlen];
|
|
|
|
this->DataFile->Stream.read(vbuf, vlen - 1);
|
|
|
|
vbuf[vlen - 1] = '\0';
|
|
|
|
if (std::string(vbuf) != std::string(vstring))
|
|
|
|
{
|
|
|
|
throw vtkm::io::ErrorIO("Incorrect file format.");
|
|
|
|
}
|
|
|
|
|
|
|
|
char dot;
|
|
|
|
this->DataFile->Stream >> this->DataFile->Version[0] >> dot >> this->DataFile->Version[1];
|
|
|
|
// skip rest of the line
|
|
|
|
std::string skip;
|
|
|
|
std::getline(this->DataFile->Stream, skip);
|
|
|
|
|
|
|
|
if ((this->DataFile->Version[0] > 4) ||
|
|
|
|
(this->DataFile->Version[0] == 4 && this->DataFile->Version[1] > 2))
|
|
|
|
{
|
|
|
|
VTKM_LOG_S(vtkm::cont::LogLevel::Warn,
|
|
|
|
"Reader may not correctly read >v4.2 files. Reading version "
|
2020-08-17 14:18:24 +00:00
|
|
|
<< this->DataFile->Version[0] << "." << this->DataFile->Version[1] << ".\n");
|
2020-05-19 18:27:01 +00:00
|
|
|
}
|
|
|
|
|
|
|
|
// Read title line
|
|
|
|
std::getline(this->DataFile->Stream, this->DataFile->Title);
|
|
|
|
|
|
|
|
// Read format line
|
|
|
|
this->DataFile->IsBinary = false;
|
|
|
|
std::string format;
|
|
|
|
this->DataFile->Stream >> format >> std::ws;
|
|
|
|
if (format == "BINARY")
|
|
|
|
{
|
|
|
|
this->DataFile->IsBinary = true;
|
|
|
|
}
|
|
|
|
else if (format != "ASCII")
|
|
|
|
{
|
|
|
|
throw vtkm::io::ErrorIO("Unsupported Format.");
|
|
|
|
}
|
|
|
|
|
|
|
|
// Read structure line
|
|
|
|
std::string tag, structStr;
|
|
|
|
this->DataFile->Stream >> tag >> structStr >> std::ws;
|
|
|
|
internal::parseAssert(tag == "DATASET");
|
|
|
|
|
|
|
|
this->DataFile->Structure = vtkm::io::internal::DataSetStructureId(structStr);
|
|
|
|
if (this->DataFile->Structure == vtkm::io::internal::DATASET_UNKNOWN)
|
|
|
|
{
|
|
|
|
throw vtkm::io::ErrorIO("Unsupported DataSet type.");
|
|
|
|
}
|
|
|
|
}
|
|
|
|
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::AddField(const std::string& name,
|
|
|
|
vtkm::cont::Field::Association association,
|
2021-04-02 17:37:49 +00:00
|
|
|
vtkm::cont::UnknownArrayHandle& data)
|
2020-05-19 18:27:01 +00:00
|
|
|
{
|
|
|
|
if (data.GetNumberOfValues() > 0)
|
|
|
|
{
|
|
|
|
switch (association)
|
|
|
|
{
|
2022-03-17 17:02:37 +00:00
|
|
|
case vtkm::cont::Field::Association::Points:
|
2022-08-29 10:40:42 +00:00
|
|
|
case vtkm::cont::Field::Association::WholeDataSet:
|
2020-05-19 18:27:01 +00:00
|
|
|
this->DataSet.AddField(vtkm::cont::Field(name, association, data));
|
|
|
|
break;
|
2022-03-17 17:02:37 +00:00
|
|
|
case vtkm::cont::Field::Association::Cells:
|
2020-05-19 18:27:01 +00:00
|
|
|
this->DataSet.AddField(vtkm::cont::Field(name, association, data));
|
|
|
|
break;
|
|
|
|
default:
|
|
|
|
VTKM_LOG_S(vtkm::cont::LogLevel::Warn,
|
|
|
|
"Not recording field '" << name << "' because it has an unknown association");
|
|
|
|
break;
|
|
|
|
}
|
|
|
|
}
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadScalars(vtkm::cont::Field::Association association,
|
|
|
|
std::size_t numElements)
|
|
|
|
{
|
|
|
|
std::string dataName, dataType, lookupTableName;
|
|
|
|
vtkm::IdComponent numComponents = 1;
|
|
|
|
this->DataFile->Stream >> dataName >> dataType;
|
|
|
|
std::string tag;
|
|
|
|
this->DataFile->Stream >> tag;
|
|
|
|
if (tag != "LOOKUP_TABLE")
|
|
|
|
{
|
|
|
|
try
|
|
|
|
{
|
|
|
|
numComponents = std::stoi(tag);
|
|
|
|
}
|
|
|
|
catch (std::invalid_argument&)
|
|
|
|
{
|
|
|
|
internal::parseAssert(false);
|
|
|
|
}
|
|
|
|
this->DataFile->Stream >> tag;
|
|
|
|
}
|
|
|
|
|
|
|
|
internal::parseAssert(tag == "LOOKUP_TABLE");
|
|
|
|
this->DataFile->Stream >> lookupTableName >> std::ws;
|
|
|
|
|
2021-04-02 17:37:49 +00:00
|
|
|
vtkm::cont::UnknownArrayHandle data =
|
2020-05-19 18:27:01 +00:00
|
|
|
this->DoReadArrayVariant(association, dataType, numElements, numComponents);
|
|
|
|
this->AddField(dataName, association, data);
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadColorScalars(vtkm::cont::Field::Association association,
|
|
|
|
std::size_t numElements)
|
|
|
|
{
|
|
|
|
VTKM_LOG_S(vtkm::cont::LogLevel::Warn, "Support for COLOR_SCALARS is not implemented. Skipping.");
|
|
|
|
|
|
|
|
std::string dataName;
|
|
|
|
vtkm::IdComponent numComponents;
|
|
|
|
this->DataFile->Stream >> dataName >> numComponents >> std::ws;
|
|
|
|
std::string dataType = this->DataFile->IsBinary ? "unsigned_char" : "float";
|
2021-04-02 17:37:49 +00:00
|
|
|
vtkm::cont::UnknownArrayHandle data =
|
2020-05-19 18:27:01 +00:00
|
|
|
this->DoReadArrayVariant(association, dataType, numElements, numComponents);
|
|
|
|
this->AddField(dataName, association, data);
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadLookupTable()
|
|
|
|
{
|
|
|
|
VTKM_LOG_S(vtkm::cont::LogLevel::Warn, "Support for LOOKUP_TABLE is not implemented. Skipping.");
|
|
|
|
|
|
|
|
std::string dataName;
|
|
|
|
std::size_t numEntries;
|
|
|
|
this->DataFile->Stream >> dataName >> numEntries >> std::ws;
|
|
|
|
this->SkipArray(numEntries, vtkm::Vec<vtkm::io::internal::ColorChannel8, 4>());
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadTextureCoordinates(vtkm::cont::Field::Association association,
|
|
|
|
std::size_t numElements)
|
|
|
|
{
|
|
|
|
std::string dataName;
|
|
|
|
vtkm::IdComponent numComponents;
|
|
|
|
std::string dataType;
|
|
|
|
this->DataFile->Stream >> dataName >> numComponents >> dataType >> std::ws;
|
|
|
|
|
2021-04-02 17:37:49 +00:00
|
|
|
vtkm::cont::UnknownArrayHandle data =
|
2020-05-19 18:27:01 +00:00
|
|
|
this->DoReadArrayVariant(association, dataType, numElements, numComponents);
|
|
|
|
this->AddField(dataName, association, data);
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadVectors(vtkm::cont::Field::Association association,
|
|
|
|
std::size_t numElements)
|
|
|
|
{
|
|
|
|
std::string dataName;
|
|
|
|
std::string dataType;
|
|
|
|
this->DataFile->Stream >> dataName >> dataType >> std::ws;
|
|
|
|
|
2021-04-02 17:37:49 +00:00
|
|
|
vtkm::cont::UnknownArrayHandle data =
|
2020-05-19 18:27:01 +00:00
|
|
|
this->DoReadArrayVariant(association, dataType, numElements, 3);
|
|
|
|
this->AddField(dataName, association, data);
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadTensors(vtkm::cont::Field::Association association,
|
|
|
|
std::size_t numElements)
|
|
|
|
{
|
|
|
|
std::string dataName;
|
|
|
|
std::string dataType;
|
|
|
|
this->DataFile->Stream >> dataName >> dataType >> std::ws;
|
|
|
|
|
2021-04-02 17:37:49 +00:00
|
|
|
vtkm::cont::UnknownArrayHandle data =
|
2020-05-19 18:27:01 +00:00
|
|
|
this->DoReadArrayVariant(association, dataType, numElements, 9);
|
|
|
|
this->AddField(dataName, association, data);
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadFields(vtkm::cont::Field::Association association,
|
|
|
|
std::size_t expectedNumElements)
|
|
|
|
{
|
|
|
|
std::string dataName;
|
|
|
|
vtkm::Id numArrays;
|
|
|
|
this->DataFile->Stream >> dataName >> numArrays >> std::ws;
|
|
|
|
for (vtkm::Id i = 0; i < numArrays; ++i)
|
|
|
|
{
|
|
|
|
std::size_t numTuples;
|
|
|
|
vtkm::IdComponent numComponents;
|
|
|
|
std::string arrayName, dataType;
|
|
|
|
this->DataFile->Stream >> arrayName >> numComponents >> numTuples >> dataType >> std::ws;
|
|
|
|
if (numTuples == expectedNumElements)
|
|
|
|
{
|
2021-04-02 17:37:49 +00:00
|
|
|
vtkm::cont::UnknownArrayHandle data =
|
2020-05-19 18:27:01 +00:00
|
|
|
this->DoReadArrayVariant(association, dataType, numTuples, numComponents);
|
|
|
|
this->AddField(arrayName, association, data);
|
|
|
|
}
|
|
|
|
else
|
|
|
|
{
|
|
|
|
VTKM_LOG_S(vtkm::cont::LogLevel::Warn,
|
|
|
|
"Field " << arrayName
|
|
|
|
<< "'s size does not match expected number of elements. Skipping");
|
|
|
|
}
|
|
|
|
}
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadGlobalFields(std::vector<vtkm::Float32>* visitBounds)
|
|
|
|
{
|
|
|
|
std::string dataName;
|
|
|
|
vtkm::Id numArrays;
|
|
|
|
this->DataFile->Stream >> dataName >> numArrays >> std::ws;
|
|
|
|
for (vtkm::Id i = 0; i < numArrays; ++i)
|
|
|
|
{
|
|
|
|
std::size_t numTuples;
|
|
|
|
vtkm::IdComponent numComponents;
|
|
|
|
std::string arrayName, dataType;
|
|
|
|
this->DataFile->Stream >> arrayName >> numComponents >> numTuples >> dataType >> std::ws;
|
|
|
|
if (arrayName == "avtOriginalBounds" && visitBounds)
|
|
|
|
{
|
|
|
|
visitBounds->resize(6);
|
|
|
|
internal::parseAssert(numComponents == 1 && numTuples == 6);
|
|
|
|
// parse the bounds and fill the bounds vector
|
|
|
|
this->ReadArray(*visitBounds);
|
|
|
|
}
|
|
|
|
else
|
|
|
|
{
|
|
|
|
VTKM_LOG_S(vtkm::cont::LogLevel::Info,
|
|
|
|
"Support for global field " << arrayName << " not implemented. Skipping.");
|
|
|
|
this->DoSkipArrayVariant(dataType, numTuples, numComponents);
|
|
|
|
}
|
|
|
|
}
|
|
|
|
}
|
|
|
|
|
2021-05-12 20:35:16 +00:00
|
|
|
void VTKDataSetReaderBase::ReadGlobalOrPedigreeIds(vtkm::cont::Field::Association association,
|
|
|
|
std::size_t numElements)
|
|
|
|
{
|
|
|
|
std::string dataName;
|
|
|
|
std::string dataType;
|
|
|
|
this->DataFile->Stream >> dataName >> dataType >> std::ws;
|
|
|
|
internal::parseAssert(dataType == "vtkIdType");
|
2022-10-31 21:56:37 +00:00
|
|
|
// vtk writes vtkIdType as int
|
2021-05-12 20:35:16 +00:00
|
|
|
|
2022-10-31 21:56:37 +00:00
|
|
|
vtkm::cont::UnknownArrayHandle data =
|
|
|
|
this->DoReadArrayVariant(association, "int", numElements, 1);
|
2021-05-12 20:35:16 +00:00
|
|
|
this->AddField(dataName, association, data);
|
|
|
|
|
|
|
|
this->SkipArrayMetaData(1);
|
|
|
|
}
|
|
|
|
|
2020-05-19 18:27:01 +00:00
|
|
|
class VTKDataSetReaderBase::SkipArrayVariant
|
|
|
|
{
|
|
|
|
public:
|
|
|
|
SkipArrayVariant(VTKDataSetReaderBase* reader, std::size_t numElements)
|
|
|
|
: Reader(reader)
|
|
|
|
, NumElements(numElements)
|
|
|
|
{
|
|
|
|
}
|
|
|
|
|
|
|
|
template <typename T>
|
|
|
|
void operator()(T) const
|
|
|
|
{
|
|
|
|
this->Reader->SkipArray(this->NumElements, T());
|
|
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}
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template <typename T>
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void operator()(vtkm::IdComponent numComponents, T) const
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{
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this->Reader->SkipArray(this->NumElements * static_cast<std::size_t>(numComponents), T());
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}
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protected:
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VTKDataSetReaderBase* Reader;
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std::size_t NumElements;
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};
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class VTKDataSetReaderBase::ReadArrayVariant : public SkipArrayVariant
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{
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public:
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ReadArrayVariant(VTKDataSetReaderBase* reader,
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vtkm::cont::Field::Association association,
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std::size_t numElements,
|
2021-04-02 17:37:49 +00:00
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vtkm::cont::UnknownArrayHandle& data)
|
2020-05-19 18:27:01 +00:00
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: SkipArrayVariant(reader, numElements)
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, Association(association)
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, Data(&data)
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{
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}
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template <typename T>
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void operator()(T) const
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{
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std::vector<T> buffer(this->NumElements);
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this->Reader->ReadArray(buffer);
|
2022-03-17 17:02:37 +00:00
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if ((this->Association != vtkm::cont::Field::Association::Cells) ||
|
2020-05-19 18:27:01 +00:00
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(this->Reader->GetCellsPermutation().GetNumberOfValues() < 1))
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{
|
2021-04-02 17:37:49 +00:00
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*this->Data = CreateUnknownArrayHandle(buffer);
|
2020-05-19 18:27:01 +00:00
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}
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else
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{
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// If we are reading data associated with a cell set, we need to (sometimes) permute the
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// data due to differences between VTK and VTK-m cell shapes.
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auto permutation = this->Reader->GetCellsPermutation().ReadPortal();
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vtkm::Id outSize = permutation.GetNumberOfValues();
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std::vector<T> permutedBuffer(static_cast<std::size_t>(outSize));
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for (vtkm::Id outIndex = 0; outIndex < outSize; outIndex++)
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{
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std::size_t inIndex = static_cast<std::size_t>(permutation.Get(outIndex));
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permutedBuffer[static_cast<std::size_t>(outIndex)] = buffer[inIndex];
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}
|
2021-04-02 17:37:49 +00:00
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*this->Data = CreateUnknownArrayHandle(permutedBuffer);
|
2020-05-19 18:27:01 +00:00
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}
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}
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|
template <typename T>
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void operator()(vtkm::IdComponent numComponents, T) const
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|
{
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VTKM_LOG_S(vtkm::cont::LogLevel::Warn,
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|
"Support for " << numComponents << " components not implemented. Skipping.");
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SkipArrayVariant::operator()(numComponents, T());
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}
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private:
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|
vtkm::cont::Field::Association Association;
|
2021-04-02 17:37:49 +00:00
|
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|
vtkm::cont::UnknownArrayHandle* Data;
|
2020-05-19 18:27:01 +00:00
|
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|
};
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|
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|
void VTKDataSetReaderBase::DoSkipArrayVariant(std::string dataType,
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|
|
std::size_t numElements,
|
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|
|
vtkm::IdComponent numComponents)
|
|
|
|
{
|
2021-05-11 15:40:19 +00:00
|
|
|
// string requires some special handling
|
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|
|
if (dataType == "string" || dataType == "utf8_string")
|
2020-05-19 18:27:01 +00:00
|
|
|
{
|
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|
|
const vtkm::Id stringCount = numComponents * static_cast<vtkm::Id>(numElements);
|
2021-05-11 15:40:19 +00:00
|
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|
this->SkipStringArray(stringCount);
|
2020-05-19 18:27:01 +00:00
|
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|
}
|
|
|
|
else
|
|
|
|
{
|
|
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|
vtkm::io::internal::DataType typeId = vtkm::io::internal::DataTypeId(dataType);
|
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|
|
vtkm::io::internal::SelectTypeAndCall(
|
|
|
|
typeId, numComponents, SkipArrayVariant(this, numElements));
|
|
|
|
}
|
|
|
|
}
|
|
|
|
|
2021-04-02 17:37:49 +00:00
|
|
|
vtkm::cont::UnknownArrayHandle VTKDataSetReaderBase::DoReadArrayVariant(
|
2020-05-19 18:27:01 +00:00
|
|
|
vtkm::cont::Field::Association association,
|
|
|
|
std::string dataType,
|
|
|
|
std::size_t numElements,
|
|
|
|
vtkm::IdComponent numComponents)
|
|
|
|
{
|
|
|
|
// Create empty data to start so that the return can check if data were actually read
|
|
|
|
vtkm::cont::ArrayHandle<vtkm::Float32> empty;
|
2021-04-02 17:37:49 +00:00
|
|
|
vtkm::cont::UnknownArrayHandle data(empty);
|
2020-05-19 18:27:01 +00:00
|
|
|
|
2021-05-11 15:40:19 +00:00
|
|
|
// string requires some special handling
|
|
|
|
if (dataType == "string" || dataType == "utf8_string")
|
|
|
|
{
|
|
|
|
VTKM_LOG_S(vtkm::cont::LogLevel::Warn,
|
|
|
|
"Support for data type 'string' and 'utf8_string' is not implemented. Skipping.");
|
|
|
|
const vtkm::Id stringCount = numComponents * static_cast<vtkm::Id>(numElements);
|
|
|
|
this->SkipStringArray(stringCount);
|
|
|
|
}
|
|
|
|
else
|
|
|
|
{
|
|
|
|
vtkm::io::internal::DataType typeId = vtkm::io::internal::DataTypeId(dataType);
|
|
|
|
vtkm::io::internal::SelectTypeAndCall(
|
|
|
|
typeId, numComponents, ReadArrayVariant(this, association, numElements, data));
|
|
|
|
}
|
2020-05-19 18:27:01 +00:00
|
|
|
|
|
|
|
return data;
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::ReadArray(std::vector<vtkm::io::internal::DummyBitType>& buffer)
|
|
|
|
{
|
|
|
|
VTKM_LOG_S(vtkm::cont::LogLevel::Warn,
|
|
|
|
"Support for data type 'bit' is not implemented. Skipping.");
|
|
|
|
this->SkipArray(buffer.size(), vtkm::io::internal::DummyBitType());
|
|
|
|
buffer.clear();
|
|
|
|
}
|
|
|
|
|
|
|
|
void VTKDataSetReaderBase::SkipArray(std::size_t numElements,
|
|
|
|
vtkm::io::internal::DummyBitType,
|
|
|
|
vtkm::IdComponent numComponents)
|
|
|
|
{
|
|
|
|
if (this->DataFile->IsBinary)
|
|
|
|
{
|
|
|
|
numElements = (numElements + 7) / 8;
|
|
|
|
this->DataFile->Stream.seekg(static_cast<std::streamoff>(numElements), std::ios_base::cur);
|
|
|
|
}
|
|
|
|
else
|
|
|
|
{
|
|
|
|
for (std::size_t i = 0; i < numElements; ++i)
|
|
|
|
{
|
|
|
|
vtkm::UInt16 val;
|
|
|
|
this->DataFile->Stream >> val;
|
|
|
|
}
|
|
|
|
}
|
|
|
|
this->DataFile->Stream >> std::ws;
|
|
|
|
this->SkipArrayMetaData(numComponents);
|
|
|
|
}
|
|
|
|
|
2021-05-11 15:40:19 +00:00
|
|
|
void VTKDataSetReaderBase::SkipStringArray(std::size_t numStrings)
|
|
|
|
{
|
|
|
|
if (this->DataFile->IsBinary)
|
|
|
|
{
|
|
|
|
for (std::size_t i = 0; i < numStrings; ++i)
|
|
|
|
{
|
|
|
|
auto firstByte = this->DataFile->Stream.peek();
|
|
|
|
auto type = firstByte >> 6;
|
|
|
|
switch (type)
|
|
|
|
{
|
|
|
|
case 3: // length stored in 1 byte
|
|
|
|
{
|
|
|
|
auto length = this->DataFile->Stream.get();
|
|
|
|
length &= 0x3F;
|
|
|
|
this->DataFile->Stream.seekg(static_cast<std::streamoff>(length), std::ios_base::cur);
|
|
|
|
break;
|
|
|
|
}
|
|
|
|
case 2: // length stored in 2 bytes
|
|
|
|
{
|
|
|
|
vtkm::UInt16 length = 0;
|
|
|
|
auto bytes = reinterpret_cast<char*>(&length);
|
|
|
|
this->DataFile->Stream.read(bytes, 2);
|
|
|
|
std::swap(bytes[0], bytes[1]);
|
|
|
|
length &= 0x3FFF;
|
|
|
|
this->DataFile->Stream.seekg(static_cast<std::streamoff>(length), std::ios_base::cur);
|
|
|
|
break;
|
|
|
|
}
|
|
|
|
case 1: // length stored in 4 bytes
|
|
|
|
{
|
|
|
|
vtkm::UInt32 length = 0;
|
|
|
|
auto bytes = reinterpret_cast<char*>(&length);
|
|
|
|
this->DataFile->Stream.read(bytes, 4);
|
|
|
|
std::reverse(bytes, bytes + 4);
|
|
|
|
length &= 0x3FFFFFFF;
|
|
|
|
this->DataFile->Stream.seekg(static_cast<std::streamoff>(length), std::ios_base::cur);
|
|
|
|
break;
|
|
|
|
}
|
|
|
|
default: // length stored in 8 bytes
|
|
|
|
{
|
|
|
|
vtkm::UInt64 length = 0;
|
|
|
|
auto bytes = reinterpret_cast<char*>(&length);
|
|
|
|
this->DataFile->Stream.read(bytes, 8);
|
|
|
|
std::reverse(bytes, bytes + 8);
|
|
|
|
this->DataFile->Stream.seekg(static_cast<std::streamoff>(length), std::ios_base::cur);
|
|
|
|
break;
|
|
|
|
}
|
|
|
|
}
|
|
|
|
}
|
|
|
|
}
|
|
|
|
else
|
|
|
|
{
|
|
|
|
for (std::size_t i = 0; i < numStrings; ++i)
|
|
|
|
{
|
|
|
|
// ASCII mode stores one string per line
|
|
|
|
this->DataFile->Stream.ignore(std::numeric_limits<std::streamsize>::max(), '\n');
|
|
|
|
}
|
|
|
|
}
|
|
|
|
}
|
|
|
|
|
2020-05-19 18:27:01 +00:00
|
|
|
void VTKDataSetReaderBase::SkipArrayMetaData(vtkm::IdComponent numComponents)
|
|
|
|
{
|
|
|
|
if (!this->DataFile->Stream.good())
|
|
|
|
{
|
|
|
|
return;
|
|
|
|
}
|
|
|
|
|
|
|
|
auto begining = this->DataFile->Stream.tellg();
|
|
|
|
|
|
|
|
std::string tag;
|
|
|
|
this->DataFile->Stream >> tag;
|
|
|
|
if (tag != "METADATA")
|
|
|
|
{
|
|
|
|
this->DataFile->Stream.seekg(begining);
|
|
|
|
return;
|
|
|
|
}
|
|
|
|
|
|
|
|
VTKM_LOG_S(vtkm::cont::LogLevel::Warn, "METADATA is not supported. Attempting to Skip.");
|
|
|
|
|
|
|
|
this->DataFile->Stream >> tag >> std::ws;
|
|
|
|
if (tag == "COMPONENT_NAMES")
|
|
|
|
{
|
|
|
|
std::string name;
|
|
|
|
for (vtkm::IdComponent i = 0; i < numComponents; ++i)
|
|
|
|
{
|
|
|
|
this->DataFile->Stream >> name >> std::ws;
|
|
|
|
}
|
|
|
|
}
|
|
|
|
else if (tag == "INFORMATION")
|
|
|
|
{
|
|
|
|
int numKeys = 0;
|
|
|
|
this->DataFile->Stream >> numKeys >> std::ws;
|
|
|
|
|
|
|
|
// Skipping INFORMATION is tricky. The reader needs to be aware of the types of the
|
|
|
|
// information, which is not provided in the file.
|
|
|
|
// Here we will just skip until an empty line is found.
|
|
|
|
// However, if there are no keys, then there is nothing to read (and the stream tends
|
|
|
|
// to skip over empty lines.
|
|
|
|
if (numKeys > 0)
|
|
|
|
{
|
|
|
|
std::string line;
|
|
|
|
do
|
|
|
|
{
|
|
|
|
std::getline(this->DataFile->Stream, line);
|
|
|
|
} while (this->DataFile->Stream.good() && !line.empty());
|
|
|
|
|
|
|
|
// Eat any remaining whitespace after the INFORMATION to be ready to read the next token
|
|
|
|
this->DataFile->Stream >> std::ws;
|
|
|
|
}
|
|
|
|
}
|
|
|
|
else
|
|
|
|
{
|
|
|
|
internal::parseAssert(false);
|
|
|
|
}
|
|
|
|
}
|
|
|
|
}
|
|
|
|
} // namespace vtkm::io
|