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 > EMBOSS@lists.open-bio.org > http://lists.open-bio.org/mailman/listinfo/emboss 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 EMBOSS@lists.open-bio.org http://lists.open-bio.org/mailman/listinfo/emboss
