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/*=========================================================================
*
* Copyright Insight Software Consortium
*
* 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.txt
*
* 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 "itkCSVArray2DFileReader.h"
#include "itkCSVNumericObjectFileWriter.h"
#include <iostream>
#include "itkMath.h"
const double epsilon = 1e-20;
// function for comparing matrices
template <typename T>
bool testArray(const itk::Array2D<T> & m1, const itk::Array2D<T> & m2)
{
bool pass = true;
if ( m1.rows() != m2.rows() || m1.cols() != m2.cols() )
{
pass = false;
return pass;
}
for (unsigned int i = 0; i < m1.rows(); i++)
{
for (unsigned int j = 0; j < m1.cols(); j++)
{
// We need to test whether m1 is a NaN and/or m2 is a NaN.
// If they are both NaN, then they are the same.
// If only one is NaN, then the comparison should fail.
// Without such a test, the comparison of the difference being greater than epsilon will pass.
// The equality and inequality predicates are non-signaling so x = x returning false can be used to test if x is a quiet NaN.
bool m1_isNaN = (itk::Math::ExactlyEquals(m1[i][j], m1[i][j]));
bool m2_isNaN = (itk::Math::ExactlyEquals(m2[i][j], m2[i][j]));
if( (m1_isNaN && !m2_isNaN) || (!m1_isNaN && m2_isNaN) )
{
pass = false;
return pass;
}
if (std::fabs(m1[i][j] - m2[i][j]) > epsilon)
{
pass = false;
return pass;
}
}
}
return pass;
}
int itkCSVFileReaderWriterTest_Func(int argc, char *argv[], bool headers)
{
double nan = std::numeric_limits<double>::quiet_NaN();
typedef itk::Array2D<double> MatrixType;
const unsigned int ARows = 3;
const unsigned int ACols = 6;
MatrixType matrix(ARows,ACols);
matrix[0][0] = nan;
matrix[0][1] = 1e+09;
matrix[0][2] = 5;
matrix[0][3] = 9;
matrix[0][4] = 6.1;
matrix[0][5] = nan;
matrix[1][0] = 99;
matrix[1][1] = 0;
matrix[1][2] = 3.75;
matrix[1][3] = 0.008;
matrix[1][4] = nan;
matrix[1][5] = nan;
matrix[2][0] = 1;
matrix[2][1] = 2.2;
matrix[2][2] = 9;
matrix[2][3] = 5.6;
matrix[2][4] = nan;
matrix[2][5] = 3e+10;
// write out the array2D object
typedef itk::CSVNumericObjectFileWriter<double, ARows, ACols> WriterType;
WriterType::Pointer writer = WriterType::New();
if (argc < 2 )
{
std::cout << "Wrong number of arguments given." << std::endl;
return EXIT_FAILURE;
}
const std::string filename = argv[1];
writer->SetFileName( filename );
writer->SetInput( &matrix );
if (headers)
{
std::vector<std::string> ColumnHeaders;
std::vector<std::string> RowHeaders;
ColumnHeaders.push_back( "itkArray2DObject" );
ColumnHeaders.push_back( "Col1" );
ColumnHeaders.push_back( "Col2" );
ColumnHeaders.push_back( "Col3" );
ColumnHeaders.push_back( "Col4" );
ColumnHeaders.push_back( "Col5" );
ColumnHeaders.push_back( "Col6" );
RowHeaders.push_back( "Row1" );
RowHeaders.push_back( "Row2" );
RowHeaders.push_back( "Row3" );
writer->SetRowHeaders( RowHeaders );
writer->SetColumnHeaders( ColumnHeaders );
}
try
{
writer->Write();
}
catch (itk::ExceptionObject& exp)
{
std::cerr << "Exception caught!" << std::endl;
std::cerr << exp << std::endl;
return EXIT_FAILURE;
}
typedef itk::CSVArray2DFileReader<double > ReaderType;
ReaderType::Pointer reader = ReaderType::New();
reader->SetFileName( filename );
reader->SetFieldDelimiterCharacter(',');
reader->SetStringDelimiterCharacter('"');
reader->SetHasColumnHeaders(headers);
reader->SetHasRowHeaders(headers);
reader->UseStringDelimiterCharacterOff();
// read the file
try
{
reader->Update();
}
catch (itk::ExceptionObject& exp)
{
std::cerr << "Exception caught!" << std::endl;
std::cerr << exp << std::endl;
return EXIT_FAILURE;
}
reader->Print(std::cout);
typedef itk::CSVArray2DDataObject<double> DataFrameObjectType;
DataFrameObjectType::Pointer dfo = reader->GetOutput();
MatrixType test_matrix = dfo->GetMatrix();
std::cout << "Actual array: " << std::endl;
std::cout << matrix << std::endl;
std::cout << "Test array: " << std::endl;
std::cout << test_matrix;
if ( !testArray(matrix,test_matrix) )
{
std::cerr << "Matrices are not the same! Test Failed!" << std::endl;
return EXIT_FAILURE;
}
return EXIT_SUCCESS;
}
/** This test illustrates basic use for writing an Array2D object to a csv file
* and reading from that file into an Array2D data frame object. There are two
* examples: one that writes and reades a file without row and column headers,
* and one that does. */
int itkCSVArray2DFileReaderWriterTest(int argc, char *argv[])
{
if ( argc < 2 )
{
std::cerr << "Usage: " << argv[0] << " Filename" << std::endl;
return EXIT_FAILURE;
}
// test reading and writing data without headers
std::cout << std::endl << "Test Without Headers" << std::endl;
int fail1 = itkCSVFileReaderWriterTest_Func(argc,argv, false);
// test reading and writing data with headers
std::cout << std::endl << "Test With Headers." << std::endl;
int fail2 = itkCSVFileReaderWriterTest_Func(argc,argv, true);
if ( fail1 || fail2 )
{
std::cerr << "Test fails!" << std::endl;
return EXIT_FAILURE;
}
return EXIT_SUCCESS;
}
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