[BiO BB] Phylip distance matrix symmetry error

Pedro Fernandes pfern at igc.gulbenkian.pt
Sat Jun 16 10:53:29 EDT 2007

Hi Samantha

I may be missing the ccontext... but:

1) There may be a precision problem, any real number in a computer is rich in
decimal places that are not always seen, what is displayed is less precise, so:
subtract the numbers!

2) Some (!) Phylip rograms are known to be sensitive to invisible stuff on input
(insvisible being spaces, tabs, etc. So you may be evaluating somenthing that is
read with a wrong format.

3) Check carefully the origin and contents of all your files. Use Notepad++ for

Good luck

Pedro Fernandes
Centro Português de Bioinformática
Instituto Gulbenkian de Ciência
Apartado 14
CONFIDENCIAL. Esta mensagem e os ficheiros eventualmente anexos são
confidenciais. Se tiver recebido esta mensagem por engano, agradecemos
que nos contacte imediatamente por e-mail ou pelo telefone +351 21 4407912
e que elimine a mensagem e ficheiros anexos sem os reproduzir.

Quoting Samantha Fox <bioinfosm at gmail.com>:

> ERROR: distance matrix is not symmetric:
>        (42,1) element and (1,42) element are unequal.
>        They are   1.544868 and   1.544868, respectively.
>        Is it a distance matrix?
> That looks symmetric to me !!
> Any clues anyone ??
> ~S
> _______________________________________________
> General Forum at Bioinformatics.Org - BiO_Bulletin_Board at bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/bio_bulletin_board

More information about the BBB mailing list