Hello.

I'm having a problem to run the "protein2dna:bestfit" model in my 64 bit computer and under both Linux Cluster and Cygwin. For the Linux Cluster I've tried both the readymade executable and compiled source code. I downloaded the sources from ensemble CVS as well as the tarball from EBI

Program details: ./exonerate -v

exonerate from exonerate version 2.2.0
Using glib version 2.22.5
Built on Aug 26 2013

The simple command I used :

./exonerate -m p2d:b -q test_protein.fasta -t test_dna.fasta --exhaustive yes

The program just quits without producing any output as follows:

** (process:1922): WARNING **: Exhaustively generating suboptimal alignments will be VERY SLOW
-- completed exonerate analysis

However it runs fine with my old 32 bit Ubuntu.Also it runs fine if the 'bestfit' part is dropped i.e when only "protein2dna" model is used.

The Pastebin Protein and DNA file links are here:

http://pastebin.com/ex1BhJHF http://pastebin.com/zWLYKaw3

Did anybody face the same problem and any suggestions to solve it?

I'm approaching a deadline fast, and by 32 bit Ubuntu can't handle the big data I've to process. So, any help is much appreciated

Thanks in advance