[Biopython] Using ClustalW Webtool

[Peter]

On Sun, Nov 28, 2010 at 6:06 PM, Ömer <arkanion at gmail.com> wrote:
> To make a multiple alignment based on WebTools, I followed the
> instructions in Tutorial, but I have a problem with creating outfile for
> Clustalw where it says:
>
> "By default ClustalW will generate an alignment and guide tree file with
> names based on the input FASTA file, in this case opuntia.aln and
> opuntia.dnd, but you can override this or make it explicit:"
>
> However, it does not generate these files. What could be the
> problem and how can I solve it?

Hello Ömer,

I'm puzzled by the title of your email, "Using ClustalW Webtool".
Are you actually running ClustalW on your machine, or using
a website with ClustalW on it?

The Biopython tutorial is talking about the command line tool
ClustalW which you must first install on your own computer.
Have you installed it? If so how? How are you trying to run
ClustalW?

Regards,

Peter