I try to convert these matlab scripts to octave. However in getGroundTruthBoxes.m, it has following code:
freq = cell2mat(accumarray(inst(inst>0), segm(inst>0), [], #(x){linIt(histc(x,1:numClass))'}, {zeros(1,numClass)}$
When i try to run with octave, it gives " linIt undefined" error. I googled "linIt" functions , but i can not reach any information about linIt. Can you give information about this "linIt" function?
Thanks.
The user s-gupta whose repository you're using seems to have another repository called utils, where he defines this function https://github.com/s-gupta/utils/blob/master/matlab/linIt.m
Essentially it seems to be a tiny helper function that converts an array to its linearly indexed column-vector, i.e.
function a = linIt(A)
a = A(:);
end
Related
I have a code in matlab (~1000 lines) that constists of about 15 functions. The code runs fine with each function as a different script, but I want to put them all into one file so I can use the publish function more easily. However, when I put them all together my 'main' function isn't recognizing the local functions. Here's what it looks like:
function full_function()
...
values = fvalues(0);
...
end
function values = fvalues(state)
...
end
When I try to run it, it gives me
"Undefined function 'fvalues' for input arguments
of type 'double'.
Error in full_function (line 32)
values = fvalues(0);"
I've looked all over for how to do local functions and I have no idea what I'm doing wrong. If I right-click on fvalues and hit 'open' it even brings me to the correct portion of the code, so I have no idea why full_function cannot read it. Please help! Thanks.
I am trying to pass a structure of parameters to an S-function in MATLAB. I have a bunch of parameters and I would like to avoid passing them like this:
% The general form of an MATLAB S-function syntax is:
% [SYS,X0,STR,TS,SIMSTATECOMPLIANCE] = SFUNC(T,X,U,FLAG,P1,...,Pn)
I would prefer passing a single structure that includes all of my parameters. I loaded the data into the Model Workspace as:
First I tried ( in response to Phil):
function [sys,x0,str,ts,simStateCompliance]=system1(t,x,u,flag,DATA_HMMWV)
sizes.NumInputs = 2;
also,
But I get this error:
Phil, this is why I tried to add another input port to the S-Function, I thought that it had to go in there.
I also tried:
sizes.NumInputs = 1;
and I get this error:
Also, are you sure that the DATA_HMMWV is a parameter? It looks slightly different than a Param in this window:
NEW:::: 1/25/2016
Phil, the issue is not with my derivative function, the issue is that I am still not passing the structure into the function. Here is a picture. Notice the data is in the Model Workspace and I passed it (DATA_HMMWV) to the function, but when I stop the simulation at line 13 (debugging mode), DATA_HMMWV is not in the function workspace.
If the code continues ( to flag = 1) we get:
If the code continues to run, it crashes with this error:
So, there were not enough input arguments passed to the function. Also, the function is very simple:
%
function sys = mdlDerivatives(t,x,u,DATA_HMMWV)
sys = DATA_HMMWV.g;
% end mdlDerivatives
It just tries to grab a parameter from the structure.
Setup 1: Load the data as a structure into the base workspace and run the simulink model
clear;
clc;
close all
PlantName = 'untitled';
open(PlantName)
TFinal = 10;
load DATA_HMMWV.mat
sim(PlantName, TFinal)
Setup 2:
Setup 3:
When you double click on this model, specify the structure that you would like to pass to the S-function as:
Setup 4: your functions should also have the structure in it:
function [sys,x0,str,ts,simStateCompliance]=system1(t,x,u,flag,DATA_HMMWV)
and any other functions that you need the structure in, for example:
case 1
sys = mdlDerivatives(t,x,u,DATA_HMMWV);
then,
function sys = mdlDerivatives(t,x,u,DATA_HMMWV)
Now, you have passed a strucure to level-1 S-function!
I wrote code similar to that posted by FeliceM, but when I tried to include the recommended changes/additions I got the following error:
Warning: File: odd_index.m Line: 5 Column: 18
Function with duplicate name "odd_index" cannot be called.
Here's my code:
function odd_index
M=[1:5; 6:10; 11:15; 16:20; 21:25];
M=M(1:2:end, 1:2:end);
end
function M_out = odd_index(M)
M_out = M(1:2:end, 1:2:end);
end
Not quite sure what I'm doing wrong.
It appears to be simply a problem of naming your two functions the same name. Rename the second function (and make sure it's in a separate file with the same name as itself). Really, the first one isn't a function at all, but appears to be a script.
You may want to refer to the MATLAB Getting Started help documentation for more information on functions and scripts. http://www.mathworks.com/help/matlab/getting-started-with-matlab.html
I am getting an error when running matlab code. Here I am trying to use one of the outputs of previous code as input to my new code.
??? Reference to non-existent field 'y1'.
Can anyone help me?
A good practice might be to check if the field exists before accessing it:
if isfield( s, 'y1' )
% s.y1 exists - you may access it
s.y1
else
% s.y1 does not exist - what are you going to do about it?
end
To take Edric's comment into account, another possible way is
try
% access y1
s.y1
catch em
% verify that the error indeed stems from non-existant field
if strcmp(em.identifier, 'MATLAB:nonExistentField')
fprintf(1, 'field y1 does not exist...\n');
else
throw( em ); % different error - handle by caller?
end
end
Have you used the command load to load data from file(s)?
if yes, this function overwrite your current variables, therefore, they become non-existent, so when you call, it instead of using:
load ('filename');
use:
f=load ('filename');
now, to refer to any variable inside the loaded file use f.varname, for
example if there is a network called net saved within the loaded data you may use it like:
a = f.net(fv);
I would first explain my situation and then give the solution.
I first save a variable op, it is a struct , its name is coef.mat;
I load this variable using coef = load( file_path, '-mat');
In a new function, I pass variable coef to it as a parameter, at here, the error Reference to non-existent field pops out.
My solution:
Just replace coef with coef.op, then pass it to the function, it will work.
So, I think the reason behind is that: the struct was saved as a variable, when you use load and want to acess the origin variable, you need point it out directly using dot(.) operation, you can directly open the variable in Matlab workspace and find out what it wraps inside the variable.
In your case, if your the outputs of previous code is a struct(It's my guess, but you haven't pointed out) and you saved it as MyStruct, you load it as MyInput = load(MyStruct), then when use it as function's parameter, it should be MyInput.y1.
Hops it would work!
At first load it on command window and observe the workspace window. You can see the structure name. It will work by accessing structure name. Example:
lm=load('data.mat');
disp(lm.SAMPLE.X);
Here SAMPLE is the structure name and X is a member of the structure
I am trying to create a function call graph for around 500 matlab src files. I am unable to find any tools which could help me do the same for multiple src files.
Is anyone familiar with any tools or plugins?
In case any such tools are not available, any suggestions on reading 6000 lines of matlab code
without documentation is welcome.
Let me suggest M2HTML, a tool to automatically generate HTML documentation of your MATLAB m-files. Among its feature list:
Finds dependencies between functions and generates a dependency graph (using the dot tool of GraphViz)
Automatic cross-referencing of functions and subfunctions with their definition in the source code
Check out this demo page to see an example of the output of this tool.
I recommend looking into using the depfun function to construct a call graph. See http://www.mathworks.com/help/techdoc/ref/depfun.html for more information.
In particular, I've found that calling depfun with the '-toponly' argument, then iterating over the results, is an excellent way to construct a call graph by hand. Unfortunately, I no longer have access to any of the code that I've written using this.
I take it you mean you want to see exactly how your code is running - what functions call what subfunctions, when, and how long those run for?
Take a look at the MATLAB Code Profiler. Execute your code as follows:
>> profile on -history; MyCode; profile viewer
>> p = profile('info');
p contains the function history, From that same help page I linked above:
The history data describes the sequence of functions entered and exited during execution. The profile command returns history data in the FunctionHistory field of the structure it returns. The history data is a 2-by-n array. The first row contains Boolean values, where 0 means entrance into a function and 1 means exit from a function. The second row identifies the function being entered or exited by its index in the FunctionTable field. This example [below] reads the history data and displays it in the MATLAB Command Window.
profile on -history
plot(magic(4));
p = profile('info');
for n = 1:size(p.FunctionHistory,2)
if p.FunctionHistory(1,n)==0
str = 'entering function: ';
else
str = 'exiting function: ';
end
disp([str p.FunctionTable(p.FunctionHistory(2,n)).FunctionName])
end
You don't necessarily need to display the entrance and exit calls like the above example; just looking at p.FunctionTable and p.FunctionHistory will suffice to show when code enters and exits functions.
There are already a lot of answers to this question.
However, because I liked the question, and I love to procrastinate, here is my take at answering this (It is close to the approach presented by Dang Khoa, but different enough to be posted, in my opinion):
The idea is to run the profile function, along with a digraph to represent the data.
profile on
Main % Code to be analized
p = profile('info');
Now p is a structure. In particular, it contains the field FunctionTable, which is a structure array, where each structure contains information about one of the calls during the execution of Main.m. To keep only the functions, we will have to check, for each element in FunctionTable, if it is a function, i.e. if p.FunctionTable(ii).Type is 'M-function'
In order to represent the information, let's use a MATLAB's digraph object:
N = numel(p.FunctionTable);
G = digraph;
G = addnode(G,N);
nlabels = {};
for ii = 1:N
Children = p.FunctionTable(ii).Children;
if ~isempty(Children)
for jj = 1:numel(Children)
G = addedge(G,ii,Children(jj).Index);
end
end
end
Count = 1;
for ii=1:N
if ~strcmp(p.FunctionTable(ii).Type,'M-function') % Keep only the functions
G = rmnode(G,Count);
else
Nchars = min(length(p.FunctionTable(ii).FunctionName),10);
nlabels{Count} = p.FunctionTable(ii).FunctionName(1:Nchars);
Count = Count + 1;
end
end
plot(G,'NodeLabel',nlabels,'layout','layered')
G is a directed graph, where node #i refers to the i-th element in the structure array p.FunctionTable where an edge connects node #i to node #j if the function represented by node #i is a parent to the one represented by node #j.
The plot is pretty ugly when applied to my big program but it might be nicer for smaller functions:
Zooming in on a subpart of the graph:
I agree with the m2html answer, I just wanted to say the following the example from the m2html/mdot documentation is good:
mdot('m2html.mat','m2html.dot');
!dot -Tps m2html.dot -o m2html.ps
!neato -Tps m2html.dot -o m2html.ps
But I had better luck with exporting to pdf:
mdot('m2html.mat','m2html.dot');
!dot -Tpdf m2html.dot -o m2html.pdf
Also, before you try the above commands you must issue something like the following:
m2html('mfiles','..\some\dir\with\code\','htmldir','doc_dir','graph','on')
I found the m2html very helpful (in combination with the Graphviz software). However, in my case I wanted to create documentation of a program included in a folder but ignoring some subfolders and .m files. I found that, by adding to the m2html call the "ignoreddir" flag, one can make the program ignore some subfolders. However, I didn't find an analogue flag for ignoring .m files (neither does the "ignoreddir" flag do the job). As a workaround, adding the following line after line 1306 in the m2html.m file allows for using the "ignoreddir" flag for ignoring .m files as well:
d = {d{~ismember(d,{ignoredDir{:}})}};
So, for instance, for generating html documentation of a program included in folder "program_folder" but ignoring "subfolder_1" subfolder and "test.m" file, one should execute something like this:
m2html( 'mfiles', 'program_folder', ... % set program folder
'save', 'on', ... % provide the m2html.mat
'htmldir', './doc', ... % set doc folder
'graph', 'on', ... % produce the graph.dot file to be used for the visualization, for example, as a flux/block diagram
'recursive', 'on', ... % consider also all the subfolders inside the program folders
'global', 'on', ... % link also calls between functions in different folders, i.e., do not link only the calls for the functions which are in the same folder
'ignoreddir', { 'subfolder_1' 'test.m' } ); % ignore the following folders/files
Please note that all subfolders with name "subfolder_1" and all files with name "test.m" inside the "program_folder" will be ignored.