Neils: Re: 'Most genome packages use it': can you specify? Most genome packages I know allow the flexibility to use standard line-wrapped FASTA as well, so coding an indexing scheme for a non-standard FASTA alone seems… tricky. Unless you intend on allowing both, and 'unwrapped' is just for optimization. > C Feilds: Yes, read both but write unwrapped (by default) so that steps in a workflow can use the faster unwrapped format. Read routines that "taste" the file by looking at the first record and derive the format, are much faster than when reading/writing wrapped. And less work for the user/caller.
Niels L _______________________________________________ EMBOSS mailing list EMBOSS@lists.open-bio.org http://lists.open-bio.org/mailman/listinfo/emboss