[Bioperl-l] Trace files and trace points

[Aaron J Mackey]

So the other large chunk of data in a trace file besides the quality
values are the trace point data.  Chad's scf.pm module is storing them in
the io object (not in the Seq object itself) (which of course makes
writing an SCF file with peak info a bit difficult - maybe I've
misunderstood something there).  Regardless, do we want to just trash this
info for now, put it in a data field of the seq object, or make a
Seq::Trace object to hold them (and potentially do interesting stuff with
it?) ... we don't have to answer this immediately, but until we do, 'ctf'
format output won't work (as it requires trace info).

And, I've found that the io_lib routines don't write 'abi' or 'alf'
(multi-seq abi format) formats (and also no 'ctf' unless trace info is
available, as I said above).  Everything else is ready to go, just putting
finishing touches on make test (100 tests!) and whatnot.

-Aaron

-- 
 Aaron J Mackey
 Pearson Laboratory
 University of Virginia
 (434) 924-2821
 amackey@virginia.edu