I need to call this MATLAB code from Java code. The code clusters an image according to the specified number of clusters and the specified initial cluster centers (i.e. [176;137] in this code).
nrows = size(a_image,1);
ncols = size(a_image,2);
double_a_2_image = double(reshape(a_image,nrows*ncols,1));
nColors = 2;
[cluster_idx_2_a cluster_center] =
kmeans(double_a_2_image,nColors,'distance','sqEuclidean','start',repmat([176;137],
[1,1,3]));
a_pixel_labels_2 = reshape(cluster_idx_2_a,nrows,ncols);
figure('Name','a* image labeled by cluster index: 2 colors'),imshow(a_pixel_labels_2,
[]);
What is the best tool to convert this code into jar file (or maybe .class file)? Another point: I need to run the resulted jar file on a machine that do not have matlab installed. Is that possible or should I install MATLAB Compiler Runtime (MCR) on this machine?
A simple search on google gives you this link : MATLAB Builder JA, which generate a Java wrapper around your MATLAB code. And for your second question, you won't need it, as the wrapper is taking care of the MATLAB code itself.
Related
I am using Netlogo Api Controller With spring boot
this my code (i got it from this link )
HeadlessWorkspace workspace = HeadlessWorkspace.newInstance();
try {
workspace.open("models/Residential_Solar_PV_Adoption.nlogo",true);
workspace.command("set number-of-residences 900");
workspace.command("set %-similar-wanted 7");
workspace.command("set count-years-simulated 14");
workspace.command("set number-of-residences 500");
workspace.command("set carbon-tax 13.7");
workspace.command("setup");
workspace.command("repeat 10 [ go ]");
workspace.command("reset-ticks");
workspace.dispose();
workspace.dispose();
}
catch(Exception ex) {
ex.printStackTrace();
}
i got this result in the console:
But I want to get the table view and save to database. Which command can I use to get the table view ?
Table view:
any help please ?
If you can clarify why you're trying to generate the data this way, I or others might be able to give better advice.
There is no single NetLogo command or NetLogo API method to generate that table, you have to use BehaviorSpace to get it. Here are some options, listed in rough order of simplest to hardest.
Option 1
If possible, I'd recommend just running BehaviorSpace experiments from the command line to generate your table. This will get you exactly the same output you're looking for. You can find information on how to do that in the NetLogo manual's BehaviorSpace guide. If necessary, you can run NetLogo headless from the command line from within a Java program, just look for resources on calling out to external programs from Java, maybe with ProcessBuilder.
If you're running from within Java in order to setup and change the parameters of your BehaviorSpace experiments in a way that you cannot do from within the program, you could instead generate experiment XML files in Java to pass to NetLogo at the command line. See the docs on the XML format.
Option 2
You can recreate the contents of the table using the CSV extension in your model and adding a few more commands to generate the data. This will not create the exact same table, but it will get your data output in a computer and human readable format.
In pure NetLogo code, you'd want something like the below. Note that you can control more of the behavior (like file names or the desired variables) by running other pre-experiment commands before running setup or go in your Java code. You could also run the CSV-specific file code from Java using the controlling API and leave the model unchanged, but you'll need to write your own NetLogo code version of the csv:to-row primitive.
globals [
;; your model globals here
output-variables
]
to setup
clear-all
;;; your model setup code here
file-open "my-output.csv"
; the given variables should be valid reporters for the NetLogo model
set output-variables [ "ticks" "current-price" "number-of-residences" "count-years-simulated" "solar-PV-cost" "%-lows" "k" ]
file-print csv:to-row output-variables
reset-ticks
end
to go
;;; the rest of your model code here
file-print csv:to-row map [ v -> runresult v ] output-variables
file-flush
tick
end
Option 3
If you really need to reproduce the BehaviorSpace table export exactly, you can try to run a BehaviorSpace experiment directly from Java. The table is generated by this code but as you can see it's tied in with the LabProtocol class, meaning you'll have to setup and run your model through BehaviorSpace instead of just step-by-step using a workspace as you've done in your sample code.
A good example of this might be the Main.scala object, which extracts some experiment settings from the expected command-line arguments, and then uses them with the lab.run() method to run the BehaviorSpace experiment and generate the output. That's Scala code and not Java, but hopefully it isn't too hard to translate. You'd similarly have to setup an org.nlogo.nvm.LabInterface.Settings instance and pass that off to a HeadlessWorkspace.newLab.run() to get things going.
I have the python program.
all the code can work in python.
which means that I can use the python run the ontology.py and generate the myOntology.rdf locally.
here is some part of the code:
print"~~~~~~~~~~~generate myOntology.rdf~~~~~~~~"
gs = Graph()
graph=getRDF(Triple)
for g in graph:
gs=gs+g
gs.serialize(format='xml')
print gs.serialize(format='xml') ### in java ____ OK
print "save locally???........"
print gs.serialize("myOntology.rdf",format="xml")
##in java______Python Output: None
print gs.serialize(destination="D:\\Desktop\\myOntology.rdf",format="xml")
##in java__ no response
print"~~finish !!! ~generate myOntology.rdf~~~~~~~~"
however, when i use the java to call pyhton and run ontology.py. the program stoped to save the rdf locally. Note: my java program is correct!!!
I really do not know what is the issue as the python code and java code are correct.
but when java call python to run the py, the rdf cannot be saved locally.
file = open("output.rdf", "w")
results.serialize(destination=file, format="xml")
file.flush()
file.close()
i add the file open,close.... the issue is solved. But i do not know why it works
I have a simple python script in my local machine, which returns a string. I want to run this script from java application and get the return value. I'm trying to do this using Pyrolite. I downloaded the jar files and added them to my java class path. But I'm not able to run the script.
I got the below sample code from readme.txt
NameServerProxy ns = NameServerProxy.locateNS(null);
PyroProxy remoteobject = new PyroProxy(ns.lookup("Your.Pyro.Object"));
Object result = remoteobject.call("pythonmethod", 42, "hello", new int[]{1,2,3});
String message = (String)result; // cast to the type that 'pythonmethod' returns
System.out.println("result message="+message);
remoteobject.close();
ns.close();
But this is not working for me. My system configuration is
OS: Windows 8
JDK: jdk1.7.0_51
Python: 2.6
Please help me with this.
This is how I have edited the code:
NameServerProxy ns = NameServerProxy.locateNS(null);
PyroProxy remoteobject = new PyroProxy();
Object result = remoteobject.call("C:\\trail1.py", null);
String message = (String)result; // cast to the type that 'pythonmethod' returns
System.out.println("result message="+message);
remoteobject.close();
ns.close();
I'm not positive that I understand what you're trying to do.
If you carefully read the tutorial, you'll see that you can't use Pyrolite the way you are. It specifies that you must have a python script running as a server, WITH a name server, where you must define some classes (for example Your.Pyro.Object).
Then you'll be able to call those objects you defined in that python script, but not the script itself.
To do what you want to do you'll need to call a function like C's fork(). Then you're able to call an executable, and you don't need Pyrolite.
I have a requirement to produce graphs of matrices and display these graphs on a JSP. The project has been developed in Java and so far all my operations relating to matrices are being performed using the MatLabControl API
http://code.google.com/p/matlabcontrol/ .
I wanted to return the matrices produced by MATLAB (especially eigen value matrices and wavelets). MATLAB provides a function "im2java" that converts graph image from its MATLAB representation to a java.awt.Image. My code used to get the image data in MatlabControl was as follows:
public Image produceEigenValueGraph(final double [][] matrix) {
final double [][] maxEigenValueMatrix =
extractOutMaxEigenValues(matrix);
Image matlabPlotImage = null;
try {
MatlabNumericArray matLabEigenValueMatrix =
new MatlabNumericArray(maxEigenValueMatrix, null);
matLabTypeConverter.setNumericArray("eigen",
matLabEigenValueMatrix);
matLabProxy.setVariable("amountOfTime", matrix.length - 1);
matLabProxy.eval("time");
matLabProxy.eval("plot(time, eigen)");
matLabProxy.eval("frame=getframe");
final Object [] returnedMatlabArguements =
matLabProxy.returningEval("im2java(frame.cdata)", 1);
matlabPlotImage =
(Image)returnedMatlabArguements[0];
} catch (MatlabInvocationException mie) {
mie.printStackTrace();
}
return matlabPlotImage;
}
The code returns a nested exception:
Caused by: java.io.WriteAbortedException: writing aborted;
java.io.NotSerializableException: sun.awt.image.ToolkitImage
Which basically puts an end to any hope of the above code working, unless I am incorrect in my use.
N.B The code does produce a correct graph it fails to return it in java.awt.Image
My questions are:
-Is the above code the correct/only way to return images to a java program from Matlab?
-If it is what would be the best alternatives to using Matlab, Java API or otherwise?
Is this the line that causes the exception?
matlabPlotImage = (Image)returnedMatlabArguements[0];
In answer to your question
"-Is the above code the correct/only way to return images to a java program from Matlab?"
You can call java classes from Matlab so you could also use the java in a Matlab file and call that to replace
final Object [] returnedMatlabArguements = matLabProxy.returningEval("im2java(frame.cdata)", 1);
matlabPlotImage = (Image)returnedMatlabArguements[0];
The error is being thrown because Image is not serializeable. An option would be to save it as a file in some image format (jpg,png,tiff) using either matlab or java and return File instead of Image.
"-If it is what would be the best alternatives to using Matlab, Java API or otherwise?"
Mathworks provide a Java api to perform a number of linear algebra calculations that you could implement.
http://math.nist.gov/javanumerics/jama/#Package
Alternatively the Apache Commons Math project provide a wide range of linear algebraic functions as well as other tools. http://commons.apache.org/math/userguide/linear.html
I would check other posts for suggestions on graphing in java
constructing graphs in Java
Java Graphing Libraries for Web Applicattions?
I use Launch4j as a wrapper for my Java application under Windows 7, which, to my understanding, in essence forks an instance of javaw.exe that in turn interprets the Java code. As a result, when attempting to pin my application to the task bar, Windows instead pins javaw.exe. Without the required command line, my application will then not run.
As you can see, Windows also does not realize that Java is the host application: the application itself is described as "Java(TM) Platform SE binary".
I have tried altering the registry key HKEY_CLASSES_ROOT\Applications\javaw.exe to add the value IsHostApp. This alters the behavior by disabling pinning of my application altogether; clearly not what I want.
After reading about how Windows interprets instances of a single application (and a phenomenon discussed in this question), I became interested in embedding a Application User Model ID (AppUserModelID) into my Java application.
I believe that I can resolve this by passing a unique AppUserModelID to Windows. There is a shell32 method for this, SetCurrentProcessExplicitAppUserModelID. Following Gregory Pakosz suggestion, I implemented it in an attempt to have my application recognized as a separate instance of javaw.exe:
NativeLibrary lib;
try {
lib = NativeLibrary.getInstance("shell32");
} catch (Error e) {
Logger.out.error("Could not load Shell32 library.");
return;
}
Object[] args = { "Vendor.MyJavaApplication" };
String functionName = "SetCurrentProcessExplicitAppUserModelID";
try {
Function function = lib.getFunction(functionName);
int ret = function.invokeInt(args);
if (ret != 0) {
Logger.out.error(function.getName() + " returned error code "
+ ret + ".");
}
} catch (UnsatisfiedLinkError e) {
Logger.out.error(functionName + " was not found in "
+ lib.getFile().getName() + ".");
// Function not supported
}
This appears to have no effect, but the function returns without error. Diagnosing why is something of a mystery to me. Any suggestions?
Working implementation
The final implementation that worked is the answer to my follow-up question concerning how to pass the AppID using JNA.
I had awarded the bounty to Gregory Pakosz' brilliant answer for JNI that set me on the right track.
For reference, I believe using this technique opens the possibility of using any of the APIs discussed in this article in a Java application.
I don't have Windows 7 but here is something that might get you started:
On the Java side:
package com.stackoverflow.homework;
public class MyApplication
{
static native boolean setAppUserModelID();
static
{
System.loadLibrary("MyApplicationJNI");
setAppUserModelID();
}
}
And on the native side, in the source code of the `MyApplicationJNI.dll library:
JNIEXPORT jboolean JNICALL Java_com_stackoverflow_homework_MyApplication_setAppUserModelID(JNIEnv* env)
{
LPCWSTR id = L"com.stackoverflow.homework.MyApplication";
HRESULT hr = SetCurrentProcessExplicitAppUserModelID(id);
return hr == S_OK;
}
Your question explicitly asked for a JNI solution. However, since your application doesn't need any other native method, jna is another solution which will save you from writing native code just for the sake of forwarding to the windows api. If you decide to go jna, pay attention to the fact that SetCurrentProcessExplicitAppUserModelID() is expecting a UTF-16 string.
When it works in your sandbox, the next step is to add operating system detection in your application as SetCurrentProcessExplicitAppUserModelID() is obviously only available in Windows 7:
you may do that from the Java side by checking that System.getProperty("os.name"); returns "Windows 7".
if you build from the little JNI snippet I gave, you can enhance it by dynamically loading the shell32.dll library using LoadLibrary then getting back the SetCurrentProcessExplicitAppUserModelID function pointer using GetProcAddress. If GetProcAddress returns NULL, it means the symbol is not present in shell32 hence it's not Windows 7.
EDIT: JNA Solution.
References:
The JNI book for more JNI examples
Java Native Access (JNA)
There is a Java library providing the new Windows 7 features for Java. It's called J7Goodies by Strix Code. Applications using it can be properly pinned to the Windows 7 taskbar. You can also create your own jump lists, etc.
I have implemented access to the SetCurrentProcessExplicitAppUserModelID method using JNA and it works quite well when used as the MSDN documentation suggests. I've never used the JNA api in the way you have in your code snippet. My implementation follows the typical JNA usage instead.
First the Shell32 interface definition:
interface Shell32 extends StdCallLibrary {
int SetCurrentProcessExplicitAppUserModelID( WString appID );
}
Then using JNA to load Shell32 and call the function:
final Map<String, Object> WIN32API_OPTIONS = new HashMap<String, Object>() {
{
put(Library.OPTION_FUNCTION_MAPPER, W32APIFunctionMapper.UNICODE);
put(Library.OPTION_TYPE_MAPPER, W32APITypeMapper.UNICODE);
}
};
Shell32 shell32 = (Shell32) Native.loadLibrary("shell32", Shell32.class,
WIN32API_OPTIONS);
WString wAppId = new WString( "Vendor.MyJavaApplication" );
shell32.SetCurrentProcessExplicitAppUserModelID( wAppId );
Many of the API's in the last article you mentioned make use of Windows COM which is quite difficult to use directly with JNA. I have had some success creating a custom DLL to call these API's (eg. using the SHGetPropertyStoreForWindow to set a different app ID for a submodule window) which I then use JNA to access at runtime.
Try to use JSmooth. I use always this one. In JSmooth is there an option under Skeleton by Windowed Wrapper called
Lauch java app in exe process
See on this image.
(source: andrels.com)
Also command line arguments can be passed.
I think this can be a solution for you.
Martijn
SetCurrentProcessExplicitAppUserModelID (or SetAppID()) would in fact do what you're trying to do. However, it might be easier to modify your installer to set the AppUserModel.ID property on your shortcut - quoting from the Application User Model ID document mentioned above:
In the System.AppUserModel.ID property of the application's shortcut file. A shortcut (as an IShellLink, CLSID_ShellLink, or a .lnk file) supports properties through IPropertyStore and other property-setting mechanisms used throughout the Shell. This allows the taskbar to identify the proper shortcut to pin and ensures that windows belonging to the process are appropriately associated with that taskbar button.
Note: The System.AppUserModel.ID property should be applied to a shortcut when that shortcut is created. When using the Microsoft Windows Installer (MSI) to install the application, the MsiShortcutProperty table allows the AppUserModelID to be applied to the shortcut when it is created during installation.
The latest jna-platform library now includes JNA bindings for SetCurrentProcessExplicitAppUserModelID:
https://github.com/java-native-access/jna/pull/680
I fixed mine without any ID settings.
There is an option in Launch4J if you are using it and you say you do then...
You can change the header to JNI Gui and then wrap it around the jar with the JRE.
The good thing is that it runs .exe in the process now instead on running javaw.exe with your jar. It probably does it under the hood (not sure).
Also I have noticed also that it takes around 40-50% less CPU resource which is even better!
And the pinning works fine and all that window features are enabled.
I hope it helps to someone as I spent nearly 2 days trying to solve that issue with my undecorated javafx app.