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Name library properly in BWA-MEM #401

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ihodes opened this issue Dec 22, 2016 · 2 comments
Open

Name library properly in BWA-MEM #401

ihodes opened this issue Dec 22, 2016 · 2 comments
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@ihodes
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ihodes commented Dec 22, 2016

We currently give them all the same name in the @RG header, same for platform (we should at least have the option to name these correctly, and expose it in the EDSL).

@ihodes ihodes added the bug label Dec 22, 2016
@smondet
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smondet commented Dec 22, 2016

we use the sample-name from th FASTQ pairs which we control already right?
https://github.com/hammerlab/biokepi/blob/master/src/bfx_tools/bwa.ml#L106

@ihodes
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ihodes commented Dec 22, 2016

It's the "LB" part of the @rg that's the issue in this case: https://github.com/hammerlab/biokepi/blob/master/src/bfx_tools/bwa.ml#L75

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