[EMBOSS] newbie emma (clustalw) question

[Tom Keller]

I finally found the answer. It's simple, but if you don't know it, your only guessing, and that is really not a good approach. 
The environmental variable to set is EMBOSS_CLUSTALW in whatever dot shell control file you use for setting env.
for the bash shell, I edited .bashrc with:
export EMBOSS_CLUSTALW=/usr/local/bin/clustalw

How would one go about requesting that this sort of info be added as a comment to the application tfm page? So instead of reading 
COMMENT
none

it read: Set env variable EMBOSS_CLUSTALW=<path to local clustalw executalble>

thanks,
Tom

On Dec 8, 2009, at 12:13 PM, Tom Keller wrote:

> This is an ongoing frustration. I use EMBOSS only occasionally, and I can never find a good guide for setting environmental variables. For example, I wanted to use emma with a new install of clustalw2. I made a link to it in /usr/local/bin, but emma can't find it. How do I fix this in a easy to maintain manner? 
> 
> thanks,
> Tom
> 
> 
> Thomas (Tom) Keller
> kellert at ohsu.edu
> 503.494.2442
> 6339b R Jones Hall (BSc/CROET)
> www.ohsu.edu/xd/research/research-cores/dna-analysis/
> 
> 
> _______________________________________________
> EMBOSS mailing list
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Thomas (Tom) Keller
kellert at ohsu.edu
503.494.2442
6339b R Jones Hall (BSc/CROET)
www.ohsu.edu/xd/research/research-cores/dna-analysis/