Roy Wollman, September 2,
2006 (revised November 28, 2006)
To control the microscope from Matlab, using Micro-Manager API, there
are two options:
DIY (do it yourself)
The microscopy toolbox for Matlab (see below)
DIY
Matlab has an extensive Java support which makes things easy, just do
the following:
1. Install Micro-Manager in a path without any spaces.
2. Add the path with the drivers (all the .dll files) to the windows
PATH enviromental variable.
3. In command prompt
>> edit classpath.txt
Add the location of the jar file you just installed (its in the
Micro-Manager folder), include the .jar at the end.
4. In command prompt
>> edit librarypath.txt
Add the location of the dll files.
5. Restart Matlab
6. create a java object of class MMCcore
>> mmc = MMCcore;
That’s it. Now you can call all the Micro-Manager methods
through
that object.
For more extensive interface between Matlab and Micro-Manager, please
take a
look at the Microscopy toolbox.
Microscopy toolbox for Matlab
The microscopy toolbox is an extension / interface to μManager
written in Matlab. Its ultimate goal is to create "intelligent"
microscopes that will combine analysis and acquisitions thus creating
true Roboscopes (for more propaganda, see link below). Matlab has
strong capabilities and an extensive code base for image analysis and
computer vision. The integration between Matlab and μManager will
bring image analysis and acquisition together and is an important step
toward Roboscopes. The short terms goal of the Microscopy toolbox for
Matlab is to create a tool that will make this integration easy and
simple.
For more details please read the howto / manifest below. The project is
at its early stages and the code is not mature enough for release, once
we'll have the basics going we'll set up a sourceforge project and make
everything available. If you want to get involved in this project,
please contact Roy Wollman: rwollman at ucdavis dot edu
