[ensembl-dev] Rendering deletions in BAM files

Steve Searle searle at sanger.ac.uk
Wed Aug 31 04:36:25 BST 2011


Hi Fedor

I'm looking at your patch. Could you send me some examples of cigar  
strings you think are being handled wrong, or a very small test bam  
file, to allow me to reproduce the problem.

Thanks and Regards

Steve

On 30 Aug 2011, at 09:06, Fedor Gusev wrote:

> Hello.
>
> I think BAM rendering code has an error. Basically, the cigar string
> is threated the wrong way. It has the form ([0-9]*[MDISN])* while code
> assumes ([MDISN][0-9]*)* . This results in everything being threated
> as match and no deletions are shown.
>
> Attach patch fixes it.
>
> -- 
> Kind regards,
> Fedor Gusev.
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