[Bioperl-l] Hyphy::REL code example

Albert Vilella avilella at gmail.com
Mon Jan 29 12:18:01 EST 2007


I think it should work if you change the occurrences of "nh" to "newick".

I don't know why I mistakenly wrote the synopsis with 'nh' and the
test with the correct 'newick', but that should do the trick :)

On 1/29/07, Johri, Saurabh <s.johri03 at imperial.ac.uk> wrote:
>
>
> Dear Albert,
>
> I'm trying to use Bioperl to run the REL analysis within Hyphy and have used
> the example code which you have provided i.e.
> http://doc.bioperl.org/bioperl-run/Bio/Tools/Run/Phylo/Hyphy/REL.html#libs
>
> Unfortunately, I am experiencing problems with running this code and I
> receive the exception for the tree file, because the errors tell me that
> "Can't locate Bio/TreeIO/nh.pm in @INC"
> I have browsed CPAN and have google searched to look for the nh.pm module,
> although i'm unable to find this..
>
> Could you tell me where I can locate this from?
>
> Thank you for your help,
>
> Saurabh
>
> Saurabh Johri
> PhD Candidate
> Centre For Molecular Microbiology & Infection
> Imperial College London
> London
> SW7 2AZ


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