matlab,caffe,matcaffe , How to adapt Caffe Matlab wrapper for a network trained on Mnist?


How to adapt Caffe Matlab wrapper for a network trained on Mnist?

Question:

Tag: matlab,caffe,matcaffe

I successfully trained my Caffe net on the mnist database following http://caffe.berkeleyvision.org/gathered/examples/mnist.html

Now I want to test the network with my own images using the Matlab wrapper.

Therefore in "matcaffe.m" im loading the file "lenet.prototxt" which is not used for training but which seems to be suited for testing. It is referencing a input size of 28 x 28 pixels:

name: "LeNet"
input: "data"
input_dim: 64
input_dim: 1
input_dim: 28
input_dim: 28
layer {
name: "conv1"
type: "Convolution"
bottom: "data"
top: "conv1"

Therefore I adapted the "prepare_image" function in "matcaffe.m" accordingly. It now looks like this:

% ------------------------------------------------------------------------
function images = prepare_image(im)
IMAGE_DIM = 28;
% resize to fixed input size
im = rgb2gray(im);
im = imresize(im, [IMAGE_DIM IMAGE_DIM], 'bilinear');
im = single(im);
images = zeros(1,1,IMAGE_DIM,IMAGE_DIM);
images(1,1,:,:) = im;
images = single(images);
%-------------------------------------------------------------

This converts the input image to a [1 x 1 x 28 x 28], 4dim, grayscale image. But still Matlab is complaining:

Error using caffe
MatCaffe input size does not match the input size of the
network
Error in matcaffe_myModel_mnist (line 76)
scores = caffe('forward', input_data);

Does somebody have experience with testing the trained mnist net on his own data?


Answer:

Finally I found the full solution: This how to predict a digit of your own input image using the matcaffe.m (Matlab wrapper) for Caffe

  1. In "matcaffe.m": One has to reference the file "caffe-master/examples/mnist/lenet.prototxt"
  2. Adapt the file "lenet.prototxt" as pointed out by mprat: Change the entry input_dim to input_dim: 1
  3. Use the follwing adaptation to the subfunction "prepare_image" in matcaffe.m:

(Input can be an rgb image of any size)

function image = prepare_image(im)

IMAGE_DIM = 28;

% If input image is too big , is rgb and of type uint8:
% -> resize to fixed input size, single channel, type float

im = rgb2gray(im);
im = imresize(im, [IMAGE_DIM IMAGE_DIM], 'bilinear');
im = single(im);

% Caffe needs a 4D input matrix which has single precision
% Data has to be scaled by 1/256 = 0.00390625 (like during training)
% In the second last line the image is beeing transposed!
images = zeros(1,1,IMAGE_DIM,IMAGE_DIM);
images(1,1,:,:) = 0.00390625*im';
images = single(images);

Related:


Why black surf from this Matlab command?


matlab,time-frequency
Code tfr = abs ( tfr ); [row_size, column_size] = size(tfr); tfr = tfr(1:round(row_size/2), 1:row_size); surf(tfr); view(2); I get in R2014b of OSX 10.10.3 Yosemite but rotating around shows that the cells should not be black Why is the output black? I wonder if this is a hardware problem or...

Summing rows at a fixed distance in Matlab?


matlab
I have the following matrix A in Matlab of dimension (m*d)x2 A=[1 1; 3 2; 8 3; ----- 9 1; 2 2; 5 3; ----- 6 1; 1 2; 4 3; ----- 8 1; 1 2; 5 3]; Hence m=max(A(:,2))=3 and d=4 is the number of submatrices in A of...

Plot multiple functions on one figure


matlab,matlab-figure
I'm struggling to plot multiple functions on one figure. Here is the code that I have: syms t a; a=0.9514; F1=0.5*sqrt(3*t^2); F2=-0.28375*t^2+1.155*a*(t-a)+1; F3=1; E1=diff(F1,t); E2=diff(F2,t); E3=diff(F3,t); I want to plot E1, E2 and E3, each only within a certain range, to make a "composite" line. I've tried plotting with ezplot...

How to solve for matrix in Matlab?


matlab,matrix,least-squares
How can I solve , where and and in the least squares sense in matlab? So I'd like to have the minimizing as output....

Giving a string variable as a filename in matlab


string,matlab,filenames
I am using the below mentioned code to get the file names of images according to their id's from images_1 text file as strings and use them to read the images from their directory image_count=1; for image_count=1:6 file=fopen('D:\Academics\New folder\CUB_200_2011\images_1.txt','r'); C = textscan(file, '%s'); original_image=imread('D:\Academics\New folder\CUB_200_2011\images\%s','C{1}{2*(image_count)}'); imshow(original_image) end I am able...

Matlab - Multiply specific entries by a scalar in multidimensional matrix


matlab,matrix,multidimensional-array,scalar
I'm having problems multiplying specific values within my multidimensional matrix by a scalar. My matrix has the following dimension: size(comDatabe) = 5 10 3 397 10 The third dimension is an x-y-z coordinate frame. Something went wrong and now my y-axis is defined upside down for one subject (#8 out...

How to normalise polynomial coefficients in a fraction?


matlab,polynomial-math
I have the following code: syms z Gc=1.582*(1-0.3679*z^-1)/(1+.418*z^-1); Ghp=.3679*(z^-1)*(1+.718*z^-1)/((1-z^-1)*(1-.3679*z^-1)); T=(Gc*Ghp)/(1+Gc*Ghp); clipboard('copy', latex(simplifyFraction(T))); Which results in following for T: How can I normalise coefficients? I.e. I want the z2 in denominator and z in numerator to have the coefficient of 1. Is there any function in Matlab to do so?...

Matlab Distribution Sampling


matlab,distribution,sampling,random-sample
How can I create a vector x in Matlab that has values between 0.8 and 1.2, randomly sampled from a: 1. Uniform 2. Normal distribution? There are a lot of functions dealing with distributions, but I'm having trouble using them properly....

solve symbolic system of equations inside an array


matlab,system,equation
sorry if it already has a answer..i tried other links but it didn't understand i have 2 1*63 array .landa and v. each of their members are syms. and each v member is a function of all landa members.i have already calculated v members and they are all symbolic equations...

Matlab: Using a Variable in Address of Loading


matlab
A text file could be loaded as below: load sourceETA/Record1/result1.txt How can I use a variable in address of loading? For example (n is a variable): [load 'sourceETA/Record1/result',num2str(n),'.txt'] But the above code doesn't work! How do I do?...

Matlab: For loop with window array


arrays,matlab,math,for-loop,while-loop
This is my one dimensional array A, containing 10 numbers: A = [-8.92100000000000 10.6100000000000 1.33300000000000 ... -2.57400000000000 -4.52700000000000 9.63300000000000 ... 4.26200000000000 16.9580000000000 8.16900000000000 4.75100000000000]; I want the loop to go through like this; (calculating mean interval wise) - Interval length of 2,4,8 (a(1)+a(2))/2 - value stored in one block of...

Matlab creating mat files which names are written in the variable


matlab
I have a variable 'b'. Inside of b, I have 27X1 cell. In every cell there is some characters for example in 1x1 there is asdf, in 2x1 there is dfgh it's going on like this. I want that matlab creates mat files which names are asdf, dfgh and assign...

matlab plots as movie with legend


matlab,plot,legend,movie
i have a question regarding legend for movies. This is my code: fig = figure(); for i = 1: 70000 plot(signal1) hold on; plot([i,i],[-5,5]) plot(signal2,'r') hold off; title('\fontsize{14} my data'); legend('signal1','signal2'); axis tight; f(i) = getframe(fig); end The legend shows the same colors for the first two things I plot....

Can we add a statement in between MATLAB codes?


matlab
Is it possible to add statements in between the codes. For example: If I have a code like this, r(:,1) = a(:,1) - a(:,2); Then can I write it as, r(:,1) = a(:,1)("this is a constant") - a(:,2)("this is a variable"); ...

Operating a C++ class from Matlab without mex [closed]


c++,matlab
Is there an alternative way to call a C++ class using MATLAB, and operate its methods on MATLAB variables?

How to switch Matlab plot tick labels to scientific form?


matlab,plot
I have a semilogarithmic plot which works so far with semilogx. Now I would like to change the tick labels. Now it says 10^8 10^9 ... 10^13, but I would like to see 1e8, 1e9, ... 1e13 on the x-axis. How can I change that? Cheers Manuel...

Constrained high order polynomial regression


matlab,regression
I am doing some bone segmentation whereas the result of this segmentation is points placed in a circular pattern around this bone. However as it is taken using a qCT scan, there is quite a lot noise (from e.g. flesh) on the points that i have. So the overall problem...

Adding data in intervals in Matlab


matlab
Hi I have data in MATLAB like this: F = 1.0000 1.0000 2.0000 1.0000 3.0000 1.0000 3.1416 9.0000 4.0000 1.0000 5.0000 1.0000 6.0000 1.0000 6.2832 9.0000 7.0000 1.0000 8.0000 1.0000 9.0000 1.0000 9.4248 9.0000 10.0000 1.0000 I am looking for a way to sum the data in specific intervals. Example...

Matlab — SVM — All Majority Class Predictions with Same Score and AUC = .50


matlab,svm,auc
I'm having a weird problem in training an SVM with an RBF kernel in Matlab. The issue is that, when doing a grid search, using 10-fold cross-validation, for the C and Sigma values I always get AUC values equal to approximately .50 (varying between .48 and .54 depending) -- I...

Animate through multiple 2D Matlab plots


matlab,plot
I have multiple 2D line plots in Matlab (they represent some wave moving through space). Each plot represents the wave at some time t. I want to animate through these plots (i.e. show the first plot for a fraction of a second, then show the next one, and the next,...

Reading all the files in sequence in MATLAB


matlab,image-processing
I am trying to read all the images in the folder in MATLAB using this code flst=dir(str_Expfold); But it shows me output like this. which is not the sequence as i want. Can anyone please tell me how can i read all of them in sequence? for giving downmark, please...

Create string without repeating the same element jn the string (Matlab)


string,matlab
I have a string "FDFACCFFFBDCGGHBBCFGE" . Could anyone help me to generate a new string with the same order but no element inside repeated twice. Thanks ! The expected output should be like this : "FDACBGHE"...

Creating a cell array of workspace variables without manually writing them all out. MATLAB


matlab
I have 20 column vectors in the workspace and I'd like them all to be contained within a cell array. They're all labelled data1, data2, data3,...data20. Is there a faster way to do this than: cell = {data1, data2, data3, data4, data5, data6, ...} all the way up to data20?...

Create mask from bwtraceboundary in Matlab


image,matlab,image-processing,mask,boundary
I'm trying to create a mask (or similar result) in order to erase pieces of a binary image that are not attached to the object surrounded by the boundary. I saw this thread (http://www.mathworks.com/matlabcentral/answers/120579-converting-boundary-to-mask) to do this from bwboundaries, but I'm having trouble making suitable changes to it. My goal...

Why can't I calculate CostFunction J


matlab,machine-learning
This is my implementation of CostFunctionJ: function J = CostFunctionJ(X,y,theta) m = size(X,1); predictions = X*theta; sqrErrors =(predictions - y).^2; J = 1/(2*m)* sum(sqrErrors); But when I try to enter the command in MATLAB as: >> X = [1 1; 1 2; 1 3]; >> y = [1; 2; 3];...

MATLAB - How to change “Validation Check” count


matlab,neural-network
How can I change "Validation Checks" value from 6 to higher or lower values using code? I have following code: % Create a Pattern Recognition Network hiddenLayerSize = ns; net = patternnet(hiddenLayerSize); net.divideParam.trainRatio = trRa/100; net.divideParam.valRatio = vaRa/100; net.divideParam.testRatio = teRa/100; % Train the Network [net,tr] = train(net,inputs,targets); % Test...

Plotting random signal on circle


matlab,plot,signals,circle
I have some random signal (for example sin signal) with the time scale. t=0:0.1:2*pi y=sin(t) plot(t,y) Now I want to draw this signal on this circle. So the time vector actually becomes an envelope of the circle. Envelope of the circle represents "y = 0" in cartesian coordinate system. Here...

xcorr function with impulse response


matlab,filtering,convolution
I'm trying to design a Wiener filter in Matlab for a deconvolution problem but I'm having a lot of problems. I have a gaussian white noise process with a variance of 1.2 and a impulse response which has length two. Its values are g(0) = 5 and g(1) = 4....

Connecting two binary objects in matlab


matlab,image-processing
I have a binary matrix containing several binary objects and I want to bridge between them. Actually I have the following picture: And the result has to be like this: Is there any function or a shortcut way, other than loops, for this problem?...

Import java package from Matlab deploytool to Android Studio App


java,android,image,matlab,jar
I managed to create a java package from a Matlab function (for image processing) using deploytool. I tested it in Eclipse and it runs perfectly. The problem is that I want to use this Matlab function for an Android Studio project and I can´t find any way to make it...

MATLAB - How to merge figure sections vertically


matlab,plot
I want to display three figures in a figure window. Assuming that I divide 2x2 regions. subplot(2,2,1) ---------+----------- | R1 | R2 | ---------+----------- | R3 | R4 | ---------+----------- I want to show a figure merging R1 and R3 ant other two in R2 and R4 I can display...

MATLAB equating cell elements to array


matlab,cell
I'm trying to equate each element to an array which correspond to cell element. To explain it more precisely, e.g A = {[1 1 1], [0 0 0 0 0], [1 1],[0 0 0 0 0]}; B = [0 1 0 0]; So the thing I want is : A=...

thicken an object of image to a curve in matlab


matlab,image-processing
I have a labeled matrix containing two objects. How can I thicken an object to a curve? Actually I have the following image: and I want this: Each pixel of the resulting curve is the median of each column. But if you have another idea, it is acceptable, because I...

two dimensional unique values in Matlab


arrays,matlab
I have two vectors, one of them stores the width dimension of a set of images and another one the height of these set of images. I want to use these values as two dimensional vectors [width height] and store them in a matrix. The first line, for instance, keeps...

Interpolation inside a matrix. Matlab


matlab,matrix
I have a matrix looks like: 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 2 0 0 0 0 0 1 0 1 0 0 0 1 0 4 0 0 0 0 0 3 0 0 6 0 0 4...

Matlab Crahes upon fopen in Mex File


c,matlab,fopen,mex
I have a little experience with Matlab, but am new to the mex environment. What I am trying to do is to save some values I compute to a txt file in my C routine. For the sake of simplicity I am using the example arrayProduct.c from MathWork's Create C...

Saving images with more than 8 bits per pixel in matlab


image,matlab,image-processing,computer-vision
I need to save a set of pre-processing images in matlab, resulting in grayscale images. The problem is the fact that these pre-processed images have pixel values higher than 255. If I save them with imwrite() as, for instance, .PNG files, does matlab normalize the values to be in [0,255]...

how to calculate probability for each class for predicate with knn without fitcknn?


matlab
my matlab version is 2012a. when I use fitcknn,has this error: Undefined function 'fitcknn' for input arguments of type 'cell'. how to calculate probability for each class for predicate with knn without fitcknn? after use this code, I want to calculate prob_estimates for each neighbors: knn = ClassificationKNN.fit(trainsample, trainlabel,'NumNeighbors',7); y...

Inserting One Row Each Time in a Sequence from Matrix into Another Matrix After Every nth Row in Matlab


arrays,matlab,matrix
I have matrix A and matrix B. Matrix A is 100*3. Matrix B is 10*3. I need to insert one row from matrix B each time in a sequence into matrix A after every 10th row. The result would be Matrix A with 110*3. How can I do this in...

K-Means Clustering a list of US addresses based on drive time


excel,matlab,cluster-analysis,k-means,geo
I have 8 traveling consultants that need to visit 155 groups across the continental united states. Is there a way to find the optimal 8 regions based of drive time using k-means clustering? I see there are some methods implemented already for other data sets, but they are not based...

MATLAB Access Classreg


matlab
So, I want to be able to look at (read: copy) MATLAB's NonLinearModel method of printing the regression results to the screen such as this. Nonlinear regression model: y ~ (alpha1 - alpha2*t^0.5) Estimated Coefficients: Estimate SE tStat pValue alpha1 1.0253 0.0082253 124.66 4.8823e-24 alpha2 0.0061783 0.00073277 8.4314 4.4834e-07 Number...

Error while installing deepdish


python,pip,ubuntu-14.04,caffe,lmdb
I'm trying to create an LMDB database file to be used with Caffe according to this tutorial on an Ubuntu 14.04 machine using Anaconda Python 2.7.9. However, when I do pip install deepdish, I'm getting the following error: Collecting deepdish Using cached deepdish-0.1.4.tar.gz Complete output from command python setup.py egg_info:...

function wait to execute


matlab,events,delay
In Matlab functions can be started at events,but occasionally, like with the resize function, the events are called in rapid order and the function is called many times in succession, which can cause weird behavior and lag. Is there a way to have it listen for the event but only...

Join matrices with same values in different vectors in MATLAB


matlab,matrix,merge
I am trying to merge two matrices that share same values in multiple columns. The following matrices should exemplify my problem and provide a MWE. However, my data is very long size(500000, 4), therefore I am searching an efficient way to merge them. The data consists of option data where...

How to use 1-dim vector as input for caffe?


caffe
I'd like to train a neural network (NN) on my own 1-dim data, which I stored in a hdf5 database for caffe. According to the documetation this should work. It also works for me as far as I only use "Fully Connected Layers", "Relu" and "Dropout". However I get an...

How to prevent exceeding matrix dimensions while dividing an image into blocks?


image,matlab,image-processing,image-segmentation
I have an image which I want to divide into overlapping blocks. I have set the box to be of size 8 rows and 8 columns, and the overlapping factor to be 4 rows/columns. This is what I have written to solve this: img = imread('a03-017-05.png'); overlap = 4 count...

what does ellipsis mean in a Matlab function's argument list?


matlab
What is the ellipsis for in this Matlab statement? frame = insertObjectAnnotation(frame, 'rectangle', ... bboxes, labels); ...I could not find in their online doc....

Matlab: Looping through an array


matlab,loops,for-loop,while-loop,do-while
This is my one dimensional array A. containing 10 numbers A = [-8.92100000000000 10.6100000000000 1.33300000000000 ... -2.57400000000000 -4.52700000000000 9.63300000000000 ... 4.26200000000000 16.9580000000000 8.16900000000000 4.75100000000000]; I want the loop to go through like this; (calculating mean interval wise) - Interval length of 2,4,8 (a(1)+a(2))/2 - value stored in one block of...

How to force my output data in a inputdlg on Matlab be a double?


matlab,typeconverter
I'm currently using a MATLAB to work and I need some help: I need to convert my output data (variable: units) be a double instead of a cell because I must perform a sum: units = inputdlg(question,title); sum = units + i; I've tried this code also but didn't solve...

How to access variables in the properties block of a Matlab System Object?


matlab,simulink
I am working on a simple System Object in Matlab/Simulink. It looks like this : classdef realtime_header_detectorSO < matlab.System & matlab.system.mixin.Propagates % correlateHeader % % This template includes the minimum set of functions required % to define a System object with discrete state. properties Header %nrOfBitsInPreviousStep=0; s=100; d=zeros(1,s); end properties...