[Biojava-l] Problems running SearchProfile demo

[hlr02 at doc.ic.ac.uk]

Hi,

I have tried to run the SearchProfile demo with something simple like:

>a
MGNA
>b
MGNA
>c
MGNA
>d
MGNA

I use the ProfileHMM constructor that has a string as one of its parameters 
(instead of the deprecated one). There appear to be no problems in creating 
and initializing the ProfileHMM object. The program gets stuck when the dp 
object is created:

DP dp = DPFactory.DEFAULT.createDP(profile);

I don't get any error messages but the program starts looping. I am puzzled, 
could anyone please help?

Thanks,

Henry