Open nh13 opened 7 years ago
@yfarjoun assigning this to you since I want to ask if you have seen this in your production environment, given you demultiplex and collect metrics using Picard.
This also doesn't work with skips: 1S74T8B75T
We are aware that it doesn't work with molecular barcodes, but we do not have the priority to fix it...
Would you like to contribute a fix?
Y
On Thu, Nov 17, 2016 at 1:44 PM, Nils Homer notifications@github.com wrote:
This also doesn't work with skips: 1S74T8B75T
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An obvious hack is to convert the skip and molecular barcode segments to a template segment (hint: that's my current workaround). I may contribute a fix if it becomes a major issue going forward for me (it's not). It's good to have this documented as a bug so that if other folks have the same problem they know they aren't the only ones.
@nh13 @yfarjoun Should this have been closed when #697 went in?
not quite. this workaround doesn't resolve the underlying fundamental problem...
On Wed, Jan 18, 2017 at 6:03 PM, Geraldine Van der Auwera < notifications@github.com> wrote:
@nh13 https://github.com/nh13 @yfarjoun https://github.com/yfarjoun Should this have been closed when #697 https://github.com/broadinstitute/picard/pull/697 went in?
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it doesn't handle skips and barcodes when present in both the index and in-line in the reads
The read structure
75T8B75T
works but8M67B75T
does not. The error I get is: