how to find euclidean distance between pixels within a image in opencv - c++

int main(){
Mat cmp, Ref, Diff;
cmp = imread("image1.tif", CV_LOAD_IMAGE_UNCHANGED);
Ref = imread("image2.tif", CV_LOAD_IMAGE_UNCHANGED);
ShiftChk(cmp, Ref);
absdiff(cmp, Ref, Diff);
imshow("difference image", Diff);
waitKey(0);
double min, max;
minMaxLoc(Diff, &min, &max);
Point min_loc, max_loc;
minMaxLoc(Diff, &min, &max, &min_loc, &max_loc);
Size sz = Diff.size();
cout << "max val : " << max << endl;//5
cout << "max val: " << max_loc << endl; //[26,38]
vector<vector<double>>test;
for (int i = 0; i < Diff.cols; i++) {
for (int j = 0; j < Diff.rows; j++) {
Point difference = Diff.at<uchar>(26, 38) - Diff.at<uchar>(j, i);
double dist = sqrt(difference.x*difference.x + difference.y*difference.y);
test.push_back(dist);
}
}
}
I am trying to find the Euclidean distance between a single point in an image to all other pixels. The distance values are to be stored in vector test but its showing some error in it. And also I don't know whether the logic I have used is correct to give the right answer(Euclidean distance). Can anyone help me out. Thanks in advance
Error message is:
error C2664:
'void std::vector<std::vector<double,std::allocator<_Ty>>,std::allocator<std::vector<_Ty,std::allocator<_Ty>>>>::push_back(const std::vector<_Ty,std::allocator<_Ty>> &)' :
cannot convert argument 1 from 'double' to 'std::vector<double,std::allocator<_Ty>> &&'

There are two major issues:
You're appending the values to the test vector wrong. You need either to create an intermediate vector and push_back it to test (as shown in #0X0nosugar answer), or better initialize your vectors with correct dimensions and put the value at the right place.
vector<vector<double>> test(Diff.rows, vector<double>(Diff.cols));
for (int i = 0; i < Diff.rows; i++) {
for (int j = 0; j < Diff.cols; j++) {
test[i][j] = ...
}
}
As shown in the snippet above, it's better (and faster) to scan by rows, becuase OpenCV stores images row-wise.
You are not computing the distance between two points. You are in fact taking the difference of the values at two given points and creating a Point object out of this (which makes no sense). Also you can avoid to compute explicitly the euclidean distance. You can use cv::norm:
test[i][j] = norm(Point(38, 26) - Point(j, i)); // Pay attention to i,j order!
Putting all together:
Point ref(38, 26);
vector<vector<double>> test(Diff.rows, vector<double>(Diff.cols));
for (int i = 0; i < Diff.rows; i++) {
for (int j = 0; j < Diff.cols; j++) {
test[i][j] = norm(ref - Point(j,i));
}
}

Related

How to access a vector inside a vector?

So I have a vector of vectors type double. I basically need to be able to set 360 numbers to cosY, and then put those 360 numbers into cosineY[0], then get another 360 numbers that are calculated with a different a now, and put them into cosineY[1].Technically my vector is going to be cosineYa I then need to be able to take out just cosY for a that I specify...
My code is saying this:
for (int a = 0; a < 8; a++)
{
for int n=0; n <= 360; n++
{
cosY[n] = cos(a*vectorOfY[n]);
}
cosineY.push_back(cosY);
}
which I hope is the correct way of actually setting it.
But then I need to take cosY for a that I specify, and calculate another another 360 vector, which will be stored in another vector again as a vector of vectors.
Right now I've got:
for (int a = 0; a < 8; a++
{
for (int n = 0; n <= 360; n++)
{
cosProductPt[n] = (VectorOfY[n]*cosY[n]);
}
CosProductY.push_back(cosProductPt);
}
The VectorOfY is besically the amplitude of an input wave. What I am doing is trying to create a cosine wave with different frequencies (a). I am then calculation the product of the input and cosine wave at each frequency. I need to be able to access these 360 points for each frequency later on in the program, and right now also I need to calculate the addition of all elements in cosProductPt, for every frequency (stored in cosProductY), and store it in a vector dotProductCos[a].
I've been trying to work it out but I don't know how to access all the elements in a vector of vectors to add them. I've been trying to do this for the whole day without any results. Right now I know so little that I don't even know how I would display or access a vector inside a vector, but I need to use that access point for the addition.
Thank you for your help.
for (int a = 0; a < 8; a++)
{
for int n=0; n < 360; n++) // note traded in <= for <. I think you had an off by one
// error here.
{
cosY[n] = cos(a*vectorOfY[n]);
}
cosineY.push_back(cosY);
}
Is sound so long as cosY has been pre-allocated to contain at least 360 elements. You could
std::vector<std::vector<double>> cosineY;
std::vector<double> cosY(360); // strongly consider replacing the 360 with a well-named
// constant
for (int a = 0; a < 8; a++) // same with that 8
{
for int n=0; n < 360; n++)
{
cosY[n] = cos(a*vectorOfY[n]);
}
cosineY.push_back(cosY);
}
for example, but this hangs on to cosY longer than you need to and could cause problems later, so I'd probably scope cosY by throwing the above code into a function.
std::vector<std::vector<double>> buildStageOne(std::vector<double> &vectorOfY)
{
std::vector<std::vector<double>> cosineY;
std::vector<double> cosY(NumDegrees);
for (int a = 0; a < NumVectors; a++)
{
for int n=0; n < NumDegrees; n++)
{
cosY[n] = cos(a*vectorOfY[n]); // take radians into account if needed.
}
cosineY.push_back(cosY);
}
return cosineY;
}
This looks horrible, returning the vector by value, but the vast majority of compilers will take advantage of Copy Elision or some other sneaky optimization to eliminate the copying.
Then I'd do almost the exact same thing for the second step.
std::vector<std::vector<double>> buildStageTwo(std::vector<double> &vectorOfY,
std::vector<std::vector<double>> &cosineY)
{
std::vector<std::vector<double>> CosProductY;
for (int a = 0; a < numVectors; a++)
{
for (int n = 0; n < NumDegrees; n++)
{
cosProductPt[n] = (VectorOfY[n]*cosineY[a][n]);
}
CosProductY.push_back(cosProductPt);
}
return CosProductY;
}
But we can make a couple optimizations
std::vector<std::vector<double>> buildStageTwo(std::vector<double> &vectorOfY,
std::vector<std::vector<double>> &cosineY)
{
std::vector<std::vector<double>> CosProductY;
for (int a = 0; a < numVectors; a++)
{
// why risk constantly looking up cosineY[a]? grab it once and cache it
std::vector<double> & cosY = cosineY[a]; // note the reference
for (int n = 0; n < numDegrees; n++)
{
cosProductPt[n] = (VectorOfY[n]*cosY[n]);
}
CosProductY.push_back(cosProductPt);
}
return CosProductY;
}
And the next is kind of an extension of the first:
std::vector<std::vector<double>> buildStageTwo(std::vector<double> &vectorOfY,
std::vector<std::vector<double>> &cosineY)
{
std::vector<std::vector<double>> CosProductY;
std::vector<double> cosProductPt(360);
for (std::vector<double> & cosY: cosineY) // range based for. Gets rid of
{
for (int n = 0; n < NumDegrees; n++)
{
cosProductPt[n] = (VectorOfY[n]*cosY[n]);
}
CosProductY.push_back(cosProductPt);
}
return CosProductY;
}
We could do the same range-based for trick for the for (int n = 0; n < NumDegrees; n++), but since we are iterating multiple arrays here it's not all that helpful.

Sum up distances in a for loop

I have a vector of Points and I calculate the distances between every Point (P1P2, P1P3, P1P4,....P1PN, P2P1, ... ,PMPN).
Now I want to sum all the distances of Point 1 to every other point, then all the distances of Point 2 to every other point and so on (P1P2+P1P3+...+P1PN, P2P1+P2P2+...+P2PN) an put these distances into a vector. I am stuck in my for loop now:
Here is my code:
// Calculate mass centers
vector<Point2f> centroids_1;
// Calculate distances between all mass centers
vector<double> distance_vector;
for (int i = 0, iend = centroids_1.size(); i < iend; i++) {
for (int j = 0, jend = centroids_1.size(); j < jend; j++) {
double distance = norm(centroids_1[i] - centroids_1[j]);
distance_vector.push_back(distance);
// Here I tried many things with for loops and while loops but
// I couldn't find a proper solution
}
}
Use the standard library instead of raw loops. It will be easier to read and maintain. Plus, the indices are noise. They aren't required for iteration.
for(auto const& point : centroids_1)
distance_vector.push_back(std::accumulate(begin(centroids_1), end(centroids_1), 0.0,
[&](auto res, auto const& point2) { return res + norm(point - point2); }
));
Specifically, we used a range-based-for loop along with std::accumulate. This is the description of what you want to do. Store for each point the accumulated sum of distances between it and other points.
You are not adding distance anywhere.After the first iteration of the inner loop, the answer for first point would be ready which you can save.
Also you don't need to find the difference between same points so skip when i=j
for (int i = 0, iend = centroids_1.size(); i < iend; i++)
{
double distance=0.0;
for (int j = 0, jend = centroids_1.size(); j < jend; j++)
{
if(i==j)
continue;
distance+ = norm(centroids_1[i] - centroids_1[j]);
}
distance_vector.push_back(distance);
}
}

Find similar distances between all values in vector and subset them

Given is a vector with double values. I want to know which distances between any elements of this vector have a similar distance to each other. In the best case, the result is a vector of subsets of the original values where subsets should have at least n members.
//given
vector<double> values = {1,2,3,4,8,10,12}; //with simple values as example
//some algorithm
//desired result as:
vector<vector<double> > subset;
//in case of above example I would expect some result like:
//subset[0] = {1,2,3,4}; //distance 1
//subset[1] = {8,10,12}; //distance 2
//subset[2] = {4,8,12}; // distance 4
//subset[3] = {2,4}; //also distance 2 but not connected with subset[1]
//subset[4] = {1,3}; //also distance 2 but not connected with subset[1] or subset[3]
//many others if n is just 2. If n is 3 (normally the minimum) these small subsets should be excluded.
This example is simplified as the distances of integer numbers could be iterated and tested for the vector which is not the case for double or float.
My idea so far
I thought of something like calculating the distances and storing them in a vector. Creating a difference distance matrix and thresholding this matrix for some tolerance for similar distances.
//Calculate distances: result is a vector
vector<double> distances;
for (int i = 0; i < values.size(); i++)
for (int j = 0; j < values.size(); j++)
{
if (i >= j)
continue;
distances.push_back(abs(values[i] - values[j]));
}
//Calculate difference of these distances: result is a matrix
Mat DiffDistances = Mat::zero(Size(distances.size(), distances.size()), CV_32FC1);
for (int i = 0; i < distances.size(); i++)
for (int j = 0; j < distances.size(); j++)
{
if (i >= j)
continue;
DiffDistances.at<float>(i,j) = abs(distances[i], distances[j]);
}
//threshold this matrix with some tolerance in difference distances
threshold(DiffDistances, DiffDistances, maxDistTol, 255, CV_THRESH_BINARY_INV);
//get points with similar distances
vector<Points> DiffDistancePoints;
findNonZero(DiffDistances, DiffDistancePoints);
At this point I get stuck with finding the original values corresponding to my similar distances. It should be possible to find them, but it seems very complicated to trace back the indices and I wonder if there isn't an easier way to solve the problem.
Here is a solution that works, as long as there are no branches meaning, that there are no values closer together than 2*threshold. That is the valid neighbor region because neighboring bonds should differ by less than the threshold, if I understood #Phann correctly.
The solution is definitively neither the fastest nor the nicest possible solution. But you might use it as a starting point:
#include <iostream>
#include <vector>
#include <algorithm>
int main(){
std::vector< double > values = {1,2,3,4,8,10,12};
const unsigned int nValues = values.size();
std::vector< std::vector< double > > distanceMatrix(nValues - 1);
// The distanceMatrix has a triangular shape
// First vector contains all distances to value zero
// Second row all distances to value one for larger values
// nth row all distances to value n-1 except those already covered
std::vector< std::vector< double > > similarDistanceSubsets;
double threshold = 0.05;
std::sort(values.begin(), values.end());
for (unsigned int i = 0; i < nValues-1; ++i) {
distanceMatrix.at(i).resize(nValues-i-1);
for (unsigned j = i+1; j < nValues; ++j){
distanceMatrix.at(i).at(j-i-1) = values.at(j) - values.at(i);
}
}
for (unsigned int i = 0; i < nValues-1; ++i) {
for (unsigned int j = i+1; j < nValues; ++j) {
std::vector< double > thisSubset;
double thisDist = distanceMatrix.at(i).at(j-i-1);
// This distance already belongs to another cluster
if (thisDist < 0) continue;
double minDist = thisDist - threshold;
double maxDist = thisDist + threshold;
thisSubset.push_back(values.at(i));
thisSubset.push_back(values.at(j));
//Indicate that this is already clustered
distanceMatrix.at(i).at(j-i-1) = -1;
unsigned int lastIndex = j;
for (unsigned int k = j+1; k < nValues; ++k) {
thisDist = distanceMatrix.at(lastIndex).at(k-lastIndex-1);
// This distance already belongs to another cluster
if (thisDist < 0) continue;
// Check if you found a new valid pair
if ((thisDist > minDist) && (thisDist < maxDist)){
// Update the valid distance interval
minDist = thisDist - threshold;
minDist = thisDist - threshold;
// Add the newly found point
thisSubset.push_back(values.at(k));
// Indicate that this is already clustered
distanceMatrix.at(lastIndex).at(k-lastIndex-1) = -1;
// Continue the search from here
lastIndex = k;
}
}
if (thisSubset.size() > 2) {
similarDistanceSubsets.push_back(thisSubset);
}
}
}
for (unsigned int i = 0; i < similarDistanceSubsets.size(); ++i) {
for (unsigned int j = 0; j < similarDistanceSubsets.at(i).size(); ++j) {
std::cout << similarDistanceSubsets.at(i).at(j);
if (j != similarDistanceSubsets.at(i).size()-1) {
std::cout << " ";
}
else {
std::cout << std::endl;
}
}
}
}
The idea is to precompute the distances and then look for every pair of particles, starting from the smallest and its larger neighbors, if there is another valid pair above it. If so these are all collected in a subset and this is added to the subset vector. For every new value the valid neighbor region has to be updated to ensure that neighboring distances differ by less than the threshold. Afterwards, the program continues with the next smallest value and its larger neighbors and so on.
Here is an algorithm which is slightly different from yours, which is O(n^3) in the length n of the vector - not very efficient.
It is based on the premise that you want to have subsets of at least size 2. So what you can do is consider all the two-element subsets of the vector, then find all other elements that also match.
So given a function
std::vector<int> findSubset(std::vector<int> v, int baseValue, int distance) {
// Find the subset of all elements in v that differ by a multiple of
// distance from the base value
}
you can do
std::vector<std::vector<int>> findSubsets(std::vector<int> v) {
for(int i = 0; i < v.size(); i++) {
for(int j = i + 1; j < v.size(); j++) {
subsets.push_back(findSubset(v, v[i], abs(v[i] - v[j])));
}
}
return subsets;
}
Only remaining problem is keeping track of the duplicates, maybe you can keep a hashed list of (baseValue % distance, distance) pairs for all the subsets you have already found.

OpenCV: Computing superpixel centroids

Background:
I have computed SLIC superpixels of an image using gSLICr, which gives a "per-pixel map" of image superpixels as indices (0 to the number of superpixels-1).
This map is a pointer to an integer const array (const int*) containing the indices.
I now want to compute the centroids of each superpixel using OpenCV.
Coming from a Matlab background, I would do this by using regionprops:
segments = vl_slic(myImage, regionSize, regularizer);
stats = regionprops(segments, 'Centroid');
centroids = cat(1, stats.Centroid);
I don't know how this is done using OpenCV.
Questions:
(i) How do I convert a const int* array to a cv::Mat?
(ii) How do I compute the superpixel centroids from the matrix in (i)?
As the first questions seems to be answered, I will focus on you second question. I used the following code to compute the mean coordinates (i.e. spatial centroids) of each superpixel:
/** \brief Compute the mean coordinates of each superpixel (i.e. spatial centroids).
* \param[in] labels a matrix of type CV_32SC1 holding the labels for each pixel
* \param[out] means the spatial centroids (or means in y and x axes) of the superpixels
*/
void getMeans(const cv::Mat &labels, std::vector<cv::Vec2f> &means) {
// Count superpixels or get highest superpixel index:
int superpixels = 0;
for (int i = 0; i < labels.rows; ++i) {
for (int j = 0; j < labels.cols; ++j) {
if (labels.at<int>(i, j) > superpixels) {
superpixels = labels.at<int>(i, j);
}
}
}
superpixels++;
// Setup means as zero vectors.
means.clear();
means.resize(superpixels);
for (int k = 0; k < superpixels; k++)
{
means[k] = cv::Vec2f(0, 0);
}
std::vector<int> counts(superpixels, 0);
// Sum y and x coordinates for each superpixel:
for (int i = 0; i < labels.rows; ++i) {
for (int j = 0; j < labels.cols; ++j) {
means[labels.at<int>(i, j)][0] += i; // for computing mean i (i.e. row or y axis)
means[labels.at<int>(i, j)][1] += j; // for computing the mean j (i.e. column or x axis)
counts[labels.at<int>(i, j)]++;
}
}
// Obtain averages by dividing by the size (=number of pixels) of the superpixels.
for (int k = 0; k < superpixels; ++k) {
means[k] /= counts[k];
}
}
// Do something with the means ...
If you also need the mean color, the method would require the image as an argument, but the remaining code can easily be adapted for computing the mean colors.

Algorithm for smoothing

I wrote this code for smoothing of a curve .
It takes 5 points next to a point and adds them and averages it .
/* Smoothing */
void smoothing(vector<Point2D> &a)
{
//How many neighbours to smooth
int NO_OF_NEIGHBOURS=10;
vector<Point2D> tmp=a;
for(int i=0;i<a.size();i++)
{
if(i+NO_OF_NEIGHBOURS+1<a.size())
{
for(int j=1;j<NO_OF_NEIGHBOURS;j++)
{
a.at(i).x+=a.at(i+j).x;
a.at(i).y+=a.at(i+j).y;
}
a.at(i).x/=NO_OF_NEIGHBOURS;
a.at(i).y/=NO_OF_NEIGHBOURS;
}
else
{
for(int j=1;j<NO_OF_NEIGHBOURS;j++)
{
a.at(i).x+=tmp.at(i-j).x;
a.at(i).y+=tmp.at(i-j).y;
}
a.at(i).x/=NO_OF_NEIGHBOURS;
a.at(i).y/=NO_OF_NEIGHBOURS;
}
}
}
But i get very high values for each point, instead of the similar values to the previous point . The shape is maximized a lot , what is going wrong in this algorithm ?
What it looks like you have here is a bass-ackwards implementation of a finite impulse response (FIR) filter that implements a boxcar window function. Thinking about the problem in terms of DSP, you need to filter your incoming vector with NO_OF_NEIGHBOURS equal FIR coefficients that each have a value of 1/NO_OF_NEIGHBOURS. It is normally best to use an established algorithm rather than reinvent the wheel.
Here is a pretty scruffy implementation that I hammered out quickly that filters doubles. You can easily modify this to filter your data type. The demo shows filtering of a few cycles of a rising saw function (0,.25,.5,1) just for demonstration purposes. It compiles, so you can play with it.
#include <iostream>
#include <vector>
using namespace std;
class boxFIR
{
int numCoeffs; //MUST be > 0
vector<double> b; //Filter coefficients
vector<double> m; //Filter memories
public:
boxFIR(int _numCoeffs) :
numCoeffs(_numCoeffs)
{
if (numCoeffs<1)
numCoeffs = 1; //Must be > 0 or bad stuff happens
double val = 1./numCoeffs;
for (int ii=0; ii<numCoeffs; ++ii) {
b.push_back(val);
m.push_back(0.);
}
}
void filter(vector<double> &a)
{
double output;
for (int nn=0; nn<a.size(); ++nn)
{
//Apply smoothing filter to signal
output = 0;
m[0] = a[nn];
for (int ii=0; ii<numCoeffs; ++ii) {
output+=b[ii]*m[ii];
}
//Reshuffle memories
for (int ii = numCoeffs-1; ii!=0; --ii) {
m[ii] = m[ii-1];
}
a[nn] = output;
}
}
};
int main(int argc, const char * argv[])
{
boxFIR box(1); //If this is 1, then no filtering happens, use bigger ints for more smoothing
//Make a rising saw function for demo
vector<double> a;
a.push_back(0.); a.push_back(0.25); a.push_back(0.5); a.push_back(0.75); a.push_back(1.);
a.push_back(0.); a.push_back(0.25); a.push_back(0.5); a.push_back(0.75); a.push_back(1.);
a.push_back(0.); a.push_back(0.25); a.push_back(0.5); a.push_back(0.75); a.push_back(1.);
a.push_back(0.); a.push_back(0.25); a.push_back(0.5); a.push_back(0.75); a.push_back(1.);
box.filter(a);
for (int nn=0; nn<a.size(); ++nn)
{
cout << a[nn] << endl;
}
}
Up the number of filter coefficients using this line to see a progressively more smoothed output. With just 1 filter coefficient, there is no smoothing.
boxFIR box(1);
The code is flexible enough that you can even change the window shape if you like. Do this by modifying the coefficients defined in the constructor.
Note: This will give a slightly different output to your implementation as this is a causal filter (only depends on current sample and previous samples). Your implementation is not causal as it looks ahead in time at future samples to make the average, and that is why you need the conditional statements for the situation where you are near the end of your vector. If you want output like what you are attempting to do with your filter using this algorithm, run the your vector through this algorithm in reverse (This works fine so long as the window function is symmetrical). That way you can get similar output without the nasty conditional part of algorithm.
in following block:
for(int j=0;j<NO_OF_NEIGHBOURS;j++)
{
a.at(i).x=a.at(i).x+a.at(i+j).x;
a.at(i).y=a.at(i).y+a.at(i+j).y;
}
for each neighbour you add a.at(i)'s x and y respectively to neighbour values.
i understand correctly, it should be something like this.
for(int j=0;j<NO_OF_NEIGHBOURS;j++)
{
a.at(i).x += a.at(i+j+1).x
a.at(i).y += a.at(i+j+1).y
}
Filtering is good for 'memory' smoothing. This is the reverse pass for the learnvst's answer, to prevent phase distortion:
for (int i = a.size(); i > 0; --i)
{
// Apply smoothing filter to signal
output = 0;
m[m.size() - 1] = a[i - 1];
for (int j = numCoeffs; j > 0; --j)
output += b[j - 1] * m[j - 1];
// Reshuffle memories
for (int j = 0; j != numCoeffs; ++j)
m[j] = m[j + 1];
a[i - 1] = output;
}
More about zero-phase distortion FIR filter in MATLAB: http://www.mathworks.com/help/signal/ref/filtfilt.html
The current-value of the point is used twice: once because you use += and once if y==0. So you are building the sum of eg 6 points but only dividing by 5. This problem is in both the IF and ELSE case. Also: you should check that the vector is long enough otherwise your ELSE-case will read at negative indices.
Following is not a problem in itself but just a thought: Have you considered to use an algorithm that only touches every point twice?: You can store a temporary x-y-value (initialized to be identical to the first point), then as you visit each point you just add the new point in and subtract the very-oldest point if it is further than your NEIGHBOURS back. You keep this "running sum" updated for every point and store this value divided by the NEIGHBOURS-number into the new point.
You make addition with point itself when you need to take neighbor points - just offset index by 1:
for(int j=0;j<NO_OF_NEIGHBOURS;j++)
{
a.at(i).x += a.at(i+j+1).x
a.at(i).y += a.at(i+j+1).y
}
This works fine for me:
for (i = 0; i < lenInput; i++)
{
float x = 0;
for (int j = -neighbours; j <= neighbours; j++)
{
x += input[(i + j <= 0) || (i + j >= lenInput) ? i : i + j];
}
output[i] = x / (neighbours * 2 + 1);
}