VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Jan 13 2016 - 13:31:48 CST

Hi,
  I suspect that the problem you encountered is due to improper handling
of filesystem path names that contain spaces. What happens if you make
a temporary directory on your computer in a location such as:
"C:\temp" and locate your input files there? I suspect that using
a directory name that doesn't contain spaces will cure the error
message that you're getting from the CLUSTALW run within MultiSeq.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Tue, Jan 05, 2016 at 10:52:06PM +0100, Marie Erard wrote:
> Hi,
>
> While alingning two sequences with multiseq / sequence alignment, I get
> the following message with my laptop (new HP computer, windows 7, VMD
> version 1.9.2):
>
> The sequence alignement failed with the following message:
> CLUSTAL W (1.83) Multiple Sequence Aligments
>
> Error unknown option
> -rard/Desktop/multise-49xxx24.original.fasta
> child process exited abnormally
>
>
> It works great with the same sequences on an other computer in the lab.
>
> I got the same message on my student's computer during labs based on the
> use of VMD. I would be happy to fix this.
>
>
> If anyone knows ....
>
> Mainy thanks,
>
> Marie
>
>
>
> --
> Marie Erard
> Université Paris Sud
> Laboratoire de Chimie Physique
> Bat 350 pièce 163
> 91405 Orsay Cedex
>
> Tel: 01 69 15 30 14 ou 30 31
> Email: marie.erard_at_u-psud.fr 

-- 
NIH Center for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
http://www.ks.uiuc.edu/~johns/           Phone: 217-244-3349
http://www.ks.uiuc.edu/Research/vmd/