Re: [Databionic-esom-devel] Re: interface for clustering in ESOM tools

[Christian S. <st...@Ma...>]

Hello Fabien,

I'll try to make a GUI-Tool out of it till the weekend. Unfortunately the
Tools are in the middle of some sort of refactoring at the moment (see
also mail 'No Subject' [sic!] from this list), which makes this a little
tricky.

We'll need a development branch in cvs before starting to fix this. As I
have not reached the peak  in cvs' learning curve yet, any hint on this i=
s
appreciated.

regards
Christian Stamm


Fabien Moutarde said:
> Hello.
>
> First of all, it seems that U*-matrix are not yet implemented in the
> current version
> of the package, so I can only make a version working on U-matrix...
>
> Also, another problem is that the current version of U*F clustering is
> still not *fully*
> automated: it is rather conceived as an interactive system where you
> display
> the U*-matrix (or U-matrix), and then click with the mouse on one point
> "inside"
> each of what "looks to be a separate region on the map" (with even
> sometimes
>  the need for manual tuning of the threshold parameter, when the
> semi-automated
> version chooses too big a threshold so that 2 "would-be regions" get
> flooded together
> as only one region).
>
> Anyway, I nevertheless worked out a version fitted to the Cluster.java
> skeleton
> you sent me, but it is not very convenient :
>  one has to run the program several times to iteratively add segmented
> regions into the classmask file ; also, the (x,y) starting point of
> region-growing has
>  to be set manually (through options -x and -y), which is *definitely*
> NOT convenient ;
> the category ID also has to be specified this way (with the -g option),
> but is less a hassle
> than for x,y.
>
> The ideal would thus be if there was some way to integrate the
> segmentation
> tool in the GUI displaying the U-matrix (and U*-matrix when you shall h=
ave
> added it), so that clicking on the matrix display is possible, as well
> as having
>  some buttons  (such as "new category", "erase category", ...), plus a
> slider
> and textfield (for cases when manual tuning of threshold has to be
> done)...
>
> Also, I am currently doing some experiments on an approach for automati=
ng
>  the choice of starting points (and when to stop trying to grow new
> regions) which
> could  allow a fully automated segmentation of the U*-matrix (or
> U-matrix), that
> would be more adapted to your Cluster.java skeleton. But it is still to=
o
> preliminary,
> and not really operational...
>
>
> Regards,
>
> +++++++++++++++++++++++++++++++++++++++++++++++++++++++
> Fabien MOUTARDE
> Ecole Nationale Superieure des Mines de Paris (ENSMP)
> 60 Bd Saint-Michel, 75272 PARIS Cedex 06, FRANCE
> Tel : 33 - (0) 1.40.51.92.92 Fax : 33 - (0) 1.40.51.93.01
> E-mail : Fab...@en...  Web : http://www.ensmp.fr/~moutarde
> ++++++++++++++++++++++++++++++++++++++++++++++++++++++++
>
> Fabian M=F6rchen wrote:
>
>> Dear Fabien Moutarde,
>>
>> i have implemented an interface for automatic clustering algorithms in
>> the ESOM tools to aid your plans of implementing U*F.
>>
>> as a start you should check out the latest sources from sourceforge
>> [1] and follow the description for compiling [2].
>>
>> the file src/java/databionics/esom/Cluster.java is a simple
>> demonstration for clustering the neurons of a trained ESOM. the
>> weights (*.wts) and U-Matrix and P-Matrix (both *.umx) as well as the
>> training data (*.lrn) are loaded according to the command line
>> parameters given. the clustering simply creates four clusters
>> according to the quadrants of the coordinates on the map. this way you
>> can already see how to access the map with spatial coordinates.
>>
>> the skript to start the program is called esomclust[.bat], "esomclust
>> -h" will list the syntax. the saved class mask (*.cls with one entry
>> per neuron) can be loaded from within the GUI and displayed on top of
>> the ESOM. later we will provide a mechanism to call the cluster tool
>> via the menu and have the result automatically loaded.
>>
>> you can plug in your algorithm in the Cluster.java file, if you wish.
>> later we can put it in a different class and offer several algorithms
>> from within the Cluster class.
>>
>> if you have any problems getting this to work or further questions on
>> how to access certain data structres needed in your algorithm, don't
>> hesitate to ask. the developer mailing [3] list would be a good place
>> for this, since your questions and my (of my student's) answers will
>> be available to future contributors as well.
>>
>> Regards,
>> Fabian M=F6rchen
>>
>> [1] http://databionic-esom.sourceforge.net/cvs-usage.html
>> [2] http://databionic-esom.sourceforge.net/devel.html
>> [3] http://databionic-esom.sourceforge.net/mail-lists.html
>
>
>