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/*
* Copyright (C) 2005-2022 Centre National d'Etudes Spatiales (CNES)
*
* This file is part of Orfeo Toolbox
*
* https://www.orfeo-toolbox.org/
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*/
#include "otbWrapperApplication.h"
#include "otbWrapperApplicationFactory.h"
#include "otbImageSampleExtractorFilter.h"
namespace otb
{
namespace Wrapper
{
class SampleExtraction : public Application
{
public:
/** Standard class typedefs. */
typedef SampleExtraction Self;
typedef Application Superclass;
typedef itk::SmartPointer<Self> Pointer;
typedef itk::SmartPointer<const Self> ConstPointer;
/** Standard macro */
itkNewMacro(Self);
itkTypeMacro(SampleExtraction, otb::Application);
/** Filters typedef */
typedef otb::ImageSampleExtractorFilter<FloatVectorImageType> FilterType;
private:
SampleExtraction()
{
}
void DoInit() override
{
SetName("SampleExtraction");
SetDescription("Extracts samples values from an image.");
// Documentation
SetDocLongDescription(
"The application extracts samples values from an"
"image using positions contained in a vector data file. ");
SetDocLimitations("None");
SetDocAuthors("OTB-Team");
SetDocSeeAlso(" ");
AddDocTag(Tags::Learning);
AddParameter(ParameterType_InputImage, "in", "InputImage");
SetParameterDescription("in", "Support image");
AddParameter(ParameterType_InputVectorData, "vec", "Input sampling positions");
SetParameterDescription("vec",
"Vector data file containing sampling"
"positions. (OGR format)");
AddParameter(ParameterType_OutputFilename, "out", "Output samples");
SetParameterDescription("out",
"Output vector data file storing sample"
"values (OGR format). If not given, the input vector data file is updated");
MandatoryOff("out");
AddParameter(ParameterType_Choice, "outfield", "Output field names");
SetParameterDescription("outfield", "Choice between naming method for output fields");
AddChoice("outfield.prefix", "Use a prefix and an incremental counter");
SetParameterDescription("outfield.prefix", "Use a prefix and an incremental counter");
AddParameter(ParameterType_String, "outfield.prefix.name", "Output field prefix");
SetParameterDescription("outfield.prefix.name",
"Prefix used to form the field names that"
"will contain the extracted values.");
SetParameterString("outfield.prefix.name", "value_");
AddChoice("outfield.list", "Use the given name list");
SetParameterDescription("outfield.list", "Use the given name list");
AddParameter(ParameterType_StringList, "outfield.list.names", "Output field names");
SetParameterDescription("outfield.list.names", "Full list of output field names.");
AddParameter(ParameterType_Field, "field", "Field Name");
SetParameterDescription("field", "Name of the field carrying the class name in the input vectors.");
SetListViewSingleSelectionMode("field", true);
SetVectorData("field", "vec");
SetTypeFilter("field", { OFTString, OFTInteger, OFTInteger64 });
AddParameter(ParameterType_Int, "layer", "Layer Index");
SetParameterDescription("layer", "Layer index to read in the input vector file.");
MandatoryOff("layer");
SetDefaultParameterInt("layer", 0);
AddRAMParameter();
// Doc example parameter settings
SetDocExampleParameterValue("in", "support_image.tif");
SetDocExampleParameterValue("vec", "sample_positions.sqlite");
SetDocExampleParameterValue("outfield", "prefix");
SetDocExampleParameterValue("outfield.prefix.name", "band_");
SetDocExampleParameterValue("field", "label");
SetDocExampleParameterValue("out", "sample_values.sqlite");
SetOfficialDocLink();
}
void DoUpdateParameters() override
{
if (HasValue("vec"))
{
std::string vectorFile = GetParameterString("vec");
ogr::DataSource::Pointer ogrDS = ogr::DataSource::New(vectorFile, ogr::DataSource::Modes::Read);
ogr::Layer layer = ogrDS->GetLayer(this->GetParameterInt("layer"));
ogr::Feature feature = layer.ogr().GetNextFeature();
if (!feature.addr())
{
otbAppLogFATAL(<< "No features found in " << vectorFile);
}
ClearChoices("field");
FieldParameter::TypeFilterType typeFilter = GetTypeFilter("field");
for (int iField = 0; iField < feature.ogr().GetFieldCount(); iField++)
{
std::string key, item = feature.ogr().GetFieldDefnRef(iField)->GetNameRef();
key = item;
std::string::iterator end = std::remove_if(key.begin(), key.end(), [](char c) { return !std::isalnum(c); });
std::transform(key.begin(), end, key.begin(), tolower);
OGRFieldType fieldType = feature.ogr().GetFieldDefnRef(iField)->GetType();
if (typeFilter.empty() || std::find(typeFilter.begin(), typeFilter.end(), fieldType) != std::end(typeFilter))
{
std::string tmpKey = "field." + key.substr(0, end - key.begin());
AddChoice(tmpKey, item);
}
}
}
}
void DoExecute() override
{
ogr::DataSource::Pointer vectors;
ogr::DataSource::Pointer output;
if (IsParameterEnabled("out") && HasValue("out"))
{
vectors = ogr::DataSource::New(this->GetParameterString("vec"));
output = ogr::DataSource::New(this->GetParameterString("out"), ogr::DataSource::Modes::Overwrite);
}
else
{
// Update mode
vectors = ogr::DataSource::New(this->GetParameterString("vec"), ogr::DataSource::Modes::Update_LayerUpdate);
output = vectors;
}
// Retrieve the field name
std::vector<int> selectedCFieldIdx = GetSelectedItems("field");
if (selectedCFieldIdx.empty())
{
otbAppLogFATAL(<< "No field has been selected for data labelling!");
}
std::vector<std::string> cFieldNames = GetChoiceNames("field");
std::string fieldName = cFieldNames[selectedCFieldIdx.front()];
std::vector<std::string> nameList;
std::string namePrefix("");
if (this->GetParameterString("outfield").compare("prefix") == 0)
{
namePrefix = this->GetParameterString("outfield.prefix.name");
}
else if (this->GetParameterString("outfield").compare("list") == 0)
{
nameList = this->GetParameterStringList("outfield.list.names");
}
else
{
otbAppLogFATAL("Unknown output field option : " << this->GetParameterString("outfield"));
}
FilterType::Pointer filter = FilterType::New();
filter->SetInput(this->GetParameterImage("in"));
filter->SetLayerIndex(this->GetParameterInt("layer"));
filter->SetSamplePositions(vectors);
filter->SetOutputSamples(output);
filter->SetClassFieldName(fieldName);
filter->SetOutputFieldPrefix(namePrefix);
filter->SetOutputFieldNames(nameList);
filter->GetStreamer()->SetAutomaticAdaptativeStreaming(GetParameterInt("ram"));
AddProcess(filter->GetStreamer(), "Extracting sample values...");
filter->Update();
output->SyncToDisk();
}
};
} // end of namespace Wrapper
} // end of namespace otb
OTB_APPLICATION_EXPORT(otb::Wrapper::SampleExtraction)
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