There is a function in Matlab called copulafit. How can I see the code that underlies this function? Many numpy and scipy functions for Python are readily open source on Github, but I can't find Matlab functions on Github for some reason
If you have MATLAB installed you can either highlight the function name then secondary/right-click and select Open "copulafit" or alternatively type open copulafit in the command window. Yeah, I believe MATLAB isn't open source as of this posting time/date. Possibly why the reason for the lack of GitHub resources. Octave might be something that might be interesting to look into.
Related
I see the message:
MuPAD® notebooks will be removed in a future release. Use MATLAB®
live scripts instead.
To convert a MuPAD notebook file to a MATLAB live script file, see
convertMuPADNotebook. MATLAB live scripts support most MuPAD
functionality, although there are some differences. For more
information, see Convert MuPAD Notebooks to MATLAB Live Scripts.
I'm not interested in the notebook feature, but I do on occasion find some rather handy MuPAD functions, e.g. those in combinat - are these deprecated, or just the notebooks (neither of which am I very familiar with).
The publish function in MATLAB works for both scripts and functions,
while the one for Octave works only for scripts: if I enter
publish myFunc.m
Octave gave
error: publish: Only Octave script files can be published.
Am I able to publish a function in Octave? If yes, how?
You can use Octave Forge generate_html package which is meant to generate html of individual functions. It is mostly used to generate the documentation of Octave Forge packages, and its defaults reflect that, but you could add any style you want.
This package will use the same help text that the help function in Octave sees which is the first block of comments in the file that does not start by Copyright or Author. You can have it in plain text but for nicer formatting, you can use Texinfo. In that case, the first line of the help text should be -*- texinfo -*-. There is a page on the Octave wiki with tips on how to write nice help text including a short section on Texinfo syntax (the actual Texinfo manual can be a bit overwhelming).
In addition to the help text, the generate_html package also identifies %!demo blocks and generates a section with the demo code and output it generates, including figures.
The best way to see how help text and demo blocks work in Octave is to check the source (as #Andy pointed out in the comments). For example, see the source for inpolygon (scroll to the bottom to find the %!demo blocks, right before %!test and %!error). The generate_html package generates this page (note the Demonstration blocks).
This is a "multiple questions in one" question, making lots of assumptions in between, so let's address those first:
1. I'll start by the question in the comment, since that's the easiest: Matlab's publisher is not a code documentation tool. It's a "make a quick report that includes both text and code to show at your supervisor meeting or write a quick point in a blog" tool. So the link you point to is simply irrelevant in this case, since that talks about documentation for matlab code.
2. The fact that matlab's publisher also "works for functions", particularly given the first point here, should be considered to be more of a bug than a feature, or at most as a trivial undocumented extension. If you look at the matlab documentation for the publish command, you'll see it expects a filename, not a function with arguments, and the documentation only talks about scripts and makes no mention of 'function' compatibility.
3. Furthermore, even if you did want to use publisher as a "documentation tool", this is counterintuitive for functions in this format, since you need to provide arguments in order for publisher to work (which will not be shown in the actual report), you'll need a modified version that displays intermediate calculations (as opposed to your normal version which presumably does not), and the function just spews an ugly ans= blabla at the end of the report. If your end goal is documentation, it might be best to write a bespoke script for this anyway, showing proper usage and examples, like matlab does in its actual documentation.
Having said all that, yes, there is a 'cheat' you can do to include a function's code in your published report, which is that, in octave (also matlab since R2016b), functions can be defined locally. A .m file that only contains function definitions is interpreted as a function file, but if there are other non-function-declaration instructions preceding the function definitions (other than comments), then it is seen as a script. So if you publish this script, you effectively get a published report with function code in it:
%% Adding function
% This function takes an input and adds 5 to it.
%% Example inputs
In = 10;
%% The function itself
% Marvel at its beauty!
function Out = myfun(In)
%% Here is where the addition takes place.
% It is a beautiful addition
Out = In + 5;
end
%% Example use
Out = myfun(In)
(If you're not happy about having to create a 'wrapper script' manually, you can always create your own wrapper function that does this automatically).
However, both the matlab and octave publishers are limited tools by design. Like I said earlier, it's more of a "quick report to show numbers and plots to your supervisor" tool, rather than a "make nice documentation or professional reports" tool. Instead, I would invest in a nice automated latex workflow, and have a look at code formatting tools for displaying code, and simply wrap that code in a script that produces output to a file that you can then import into latex. It may sound like more work, but it's a lot more flexible and robust in the long term, particularly since the formatting commands can be very quirky as well as limited.
I am trying to read the following internal MATLAB function:
>>which visionInitializeAndExpandCheckerboard
built-in (C:\Program Files\MATLAB\R2015a\toolbox\vision\vision\visionInitializeAndExpandCheckerboard)
But it appears to be hidden away! And very well hidden.
None of the following methods to access it have worked:
Highlighting the name and pressing Ctrl+D.
Typing "edit visionInitializeAndExpandCheckerboard" in the command line.
Searching for the file in Matlab's own FindFiles.
Searching for the file on the disk.
Trying to Step Into the function in debug mode (I just get the output as if I had requested Step Out instead).
Btw, the reason I am looking into this is that the parent function detectCheckerboardPoints has seriously declined in performance from R2015a to R2016b and I am trying to figure out why.
The internal function is compiled native code, so you will not be able to see its source. If you see a performance degradation, you should call Mathworks tech support and complain. If it is something they can fix, they will send you a patch, and fix it in the next release.
I want to use Fuzzy Logic Toolbox in C#. To do this, I created a NET-library using deploytool, but it does not include the file fuzzy.m, which I need to work. And in the log mccExcludedFiles.log the following information:
This file contains the list of various toolbox functions that are not
included in the CTF file. An error will be thrown if any of these functions
are called at run-time. Some of these functions may be from toolboxes
that you are not using in your application. The reason for this is that
these toolboxes have overloaded some methods that are called by your code.
If you know which toolboxes are being used by your code, you can use the -p
flag with the -N flag to list these toolboxes explicitly. This will
cause MATLAB Compiler to only look for functions in the specified toolbox
directories in addition to the MATLAB directories. Refer to the MCC
documentation for more information on this.
C:\Program Files\MATLAB\R2010b\toolbox\fuzzy\fuzzy\fuzzy.m
called by D:\MyFolder\VNTU\bakal\matlabAndCs\ShowFuzzyDesigner.m
(because of toolbox compilability rules)
How do I include this excluded fuzzy.m file in the compilation?
The command fuzzy launches the Fuzzy Inference Systems editor, a GUI supplied with Fuzzy Logic Toolbox. Compilation of Toolbox GUIs with MATLAB Compiler is typically not supported, and as detailed in the documentation for MATLAB Compiler, this is true of the GUIs within Fuzzy Logic Toolbox.
I must say, I think the message you're getting in the mccExcludedFiles.log file is mostly misleading - all of those things could cause a file to have been excluded, but in this case the only relevant bit is at the end, "(because of toolbox compilability rules)".
You might want to look into how to build a fuzzy system using the line code functions supplied with the fuzzy toolbox, and not the GUI. This walkthrough gives you a pretty good handle on building a Mamdani inference system using the line code tools. I am not positive how these translate into C# code, but I think there should be equivalent libraries therein.
If you cannot find a natural way to implement the MATLAB routines in C#, then you could look at this discussion which links some free fuzzy libraries for C#. I think one of the links is broken, but the other three load just fine.
This was asked before, but the solution doesn't seem to work on MacOS. Wolfram Library has a package for 7 year old Matlab version. Is there a solution that works on MacOS 10.6 and Matlab 7.9?
I want to call CVX from Mathematica
You could use RunThrough["command",expr], this runs the external command command, and feeds expr (a Mathematica expression) as input to command
An example of a suitable command would be "matlab -r \"matlab expr\"", you could place your CVX specific code in the "matlab expr" string.
Update: Right now, probably MATLink is the best way to do this. It works on Windows/Linux/Mac.
Disclosure: I'm one of MATLink's authors.
Have you tried using the newer mEngine instead? I can only try it on Windows, but after looking at the sources, I believe it might work on other platforms too.
Hopefully you only need to modify main.c, actually just copy and paste the main function from one of the MathLink examples (e.g. addtwo), as mEngine's main.c has the non-Windows-specific part removed. Then compile the package as a MathLink program.