From: Colin H. <co...@no...> - 2013-07-24 09:48:46
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Hi All, I've also noticed in samtools that it flushes the bgzf buffer at the end of the headers so the first alignment BAM record starts on a new block, and it also flushes if a BAM alignment record won't fit in the remainder of a block so that most blocks start with a new read and iff a BAM record is bigger than a BAM buffer will it be split across multiple bgzf buffers. I'm wondering whether this flushing is important and specifically whether tools like samtools relies on it for functions like reheader. If so perhaps it should be in the specifications. Thanks, Colin On 19 July 2013 06:15, Dan Kortschak <dan...@ad...> wrote: > On 19/07/2013, at 1:55 AM, "Nigel Delaney" <nde...@br...> > wrote: > > > -Perhaps other lurking changes (?) > > Almost certainly. > > > For those of us implementing specifications without realizing they are > out of date, it would save a lot of time. > > Yes. This would be very nice. > > ------------------------------------------------------------------------------ > See everything from the browser to the database with AppDynamics > Get end-to-end visibility with application monitoring from AppDynamics > Isolate bottlenecks and diagnose root cause in seconds. > Start your free trial of AppDynamics Pro today! > http://pubads.g.doubleclick.net/gampad/clk?id=48808831&iu=/4140/ostg.clktrk > _______________________________________________ > Samtools-devel mailing list > Sam...@li... > https://lists.sourceforge.net/lists/listinfo/samtools-devel > |