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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Scotland, with registration number SC005336.


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