[Primeusers] Release 1.0 of PrimeGSR

[Lars Arvestad]

> I've just installed primeGSR and had some problems. It couldn't find the "g2f" library. I removed it 
> from the Makefile and it compiled without errors. Run the sample files and everything perfect (at 
> least I think since I don't know if the output is correct). What is the function of this library? Is 
> it normal to compile without it?
>   

Do you mean "g2c"? This used to be needed when linking the linear 
algebra libraries BLAS and LAPACK. Maybe this need has disappeared in 
modern systems. I will remove it from the makefile!

> Then I was trying primeGSR and managed to input everything correctly (I think). However an error 
> occurred stating:
>
> "
> the state  is notError:
>      not a valid alphabet state
> "
>
> I'm using this command line on a PC Fedora Core 7 Linux:
> primeGSR -d -o output.mcmc -Bp 0.1 0.1 -Ed Gamma -i 1000 -t 10 -Sm JTT -Hi tree.nwk in_seq.fas in_seq.gs

This bad error message is due to finding an unrecognized/unsupported 
character in the sequence data. If you have trouble finding the 
offending sequence, send it to me and I will take a look at it.

Thanks for the bug reports!
Lasse

-- 
School of Computer Science and Communication
and Stockholm Bioinformatics Center
http://www.csc.kth.se/~arve