[Biojava-l] Problems running SearchProfile demo

[hlr02 at doc.ic.ac.uk]

Hi,

I can't get the SearchProfile demo to work and I have tried various input 
files. Is there a sample file available that will work so I can test if 
something else is wrong?

Thanks,

Henry Romijn


Quoting 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
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