MATLAB APPLICATION DEPLOYMENT - WEB EXAMPLE GUIDE Manuale Utente Scaricare il pdf (Pagina 11)

To check that MATLAB is on your path:

1. Open a DOS window.

2. Type

matlab and press Enter.

If the MATLAB application starts, MATLAB is on your path.

If MATLAB is not on your path, add it:

1. Select Start>Settings>Control Panel.

2. Double-click

System.

3. Select the Advanced tab.

4. Click the

Environment Variables button.

5. Select or create the PATH variable.

6. Add the

$MATLAB_ROOT/bin directory to the path.

Open a new DOS window and check again that MATLAB is on your path.

Preferred Command Line

On platforms other than Windows, the execution of the command line differs slightly due to variations in the Java

Virtual Machines (VMs) that GenePattern is running. If you use the simple

matlab command, as described for

Windows, the Java VMs on these platforms attempt to parse and quote the command line resulting in MATLAB

generating errors in its

eval function.

On these platforms, you must use a wrapper Java class to launch MATLAB. This wrapper class also works on

Windows and does not rely on the PATH variable, which makes it the preferred method for implementing the direct

approach on any platform.

To use the wrapper Java class:

1. On the GenePattern task definition form, add the

runmatlab.jar file as a support file. To request a copy of

this file, send e-mail to [email protected]du; alternatively, the java source code for the RunMatlab wrapper

class is included here:

RunMatlab.java.

2. Write your command line as follows:

<java> -cp <libdir>runmatlab.jar RunMatlab analyzeThis <p1> <p2>

Where analyzeThis is the name of your MATLAB entry function name and <p1> and <p2> are the

arguments to the function. The

RunMatlab class ensures that the arguments are correctly written out and calls

MATLAB with the

-nosplash and -nodisplay arguments.

Compiled Approach Distribution

Creating Tasks describes how to create a GenePattern task that invokes the code that you have written. This section

provides additional information that applies when you are compiling your M-code into a standalone executable and

invoking that executable from the GenePattern task:

●

Preparing the GenePattern Server

● Writing the Launcher Script

●

Writing the Module Command Line

●

Adding Support Files

●

Distribution Licensing

Preparing the GenePattern Server

To run a standalone executable generated by the MATLAB Compiler, the GenePattern server must have the

MATLAB Component Runtime (MCR) installed. This is a collection of shared libraries, which contains the runtime

code for MATLAB, that is used by the standalone application. If the GenePattern server has MATLAB installed, you

do not need to install the MCR; it is already installed.

Full details for installing the MCR can be found in the

MATLAB Compiler documentation, in the section titled

“Deployng Components to Other Machines”. To summarize this documentation, on the GenePattern server machine,

you need to run the MCRInstaller:

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