On Wed, Aug 24, 2011 at 1:15 PM, Kanwei Li <kanwei@gmail.com> wrote:

Hi Shaun,

Thanks for reporting this, I have just committed the fix. I will let you know if we add the read_name to the truncated output.

-K

On Tue, Aug 2, 2011 at 6:54 AM, SHAUN WEBB <swebb1@staffmail.ed.ac.uk> wrote:

Hi, I've noticed a bug in sam2interval.py.

There are a few indentation errors in the final lines of code. I think there should be an indent after:

if not ref_name == '*':

And this whole if statement should be included in the for loop above.

Also, would you be able to add read_name to the truncated output (when not printing all fields). This makes downstream analysis a lot easier, e.g. looking at reads that map multiple times.

Thanks
Shaun Webb

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