[EMBOSS] using emma: where to put clustalw
robin at hms.harvard.edu
Tue Apr 12 14:17:42 UTC 2005
I was trying to use emma for a multiple sequence alignment of dna
sequencing reads, but it complained that it could not find clustalw. I
could not find any mention of clustalw on the EMBOSS page, so I got a
copy from the clustalw homepage and -not knowing where to place it-
tried the /usr/local/share/ EMBOSS/acd directory. That didn't work, and
emma gives the error:
EMBOSS An error in ajsys.c at line 398:
cannot find program 'clustalw'
Looking in the emma.acd and ajsys.c files, I can't find any guidance.
Does anyone know how this is supposed to work?
Alternatively, is there another good way to do multiple sequence
Looking ahead, I do not find any obvious way to do contig assembly, a
la Phrap, or CAP.
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