I would have thought anything that makes life easier when you need it but doesn't make life harder when you don't would be a good thing, as long as it doesn't take too much programming effort. Seeing as you are intending to rewrite BioJava from scratch anyway, I think this would be a good thing to work into the mechanism.
Richard Holland Bioinformatics Specialist GIS extension 8199 --------------------------------------------- This email is confidential and may be privileged. If you are not the intended recipient, please delete it and notify us immediately. Please do not copy or use it for any purpose, or disclose its content to any other person. Thank you. --------------------------------------------- > -----Original Message----- > From: [EMAIL PROTECTED] > [mailto:[EMAIL PROTECTED] On Behalf Of > Thomas Down > Sent: Monday, January 24, 2005 5:22 PM > To: [EMAIL PROTECTED] > Cc: biojava-list List > Subject: Re: [Biojava-l] reading nib sequence files > > > > On 24 Jan 2005, at 09:17, [EMAIL PROTECTED] wrote: > > > BioJava uses (or at least can use) the PackedSymbolList for large > > sequences. It uses an array of longs to represent the packed bits. > > > > There may be some advantage to using a ByteBuffer, hard to know. > > The main reason I was thinking for using MappedByteBuffer is that if > you're accessing a large amount of sequence it won't necessarily all > get loaded into memory at once. This could, for example, make random > access to a multi-gigabase sequence database bearable on a basic > desktop computer. Just a thought, not sure how much demand there is > for this. > > Thomas. > > _______________________________________________ > Biojava-l mailing list - Biojava-l@biojava.org > http://biojava.org/mailman/listinfo/biojava-l > _______________________________________________ Biojava-l mailing list - Biojava-l@biojava.org http://biojava.org/mailman/listinfo/biojava-l
