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head_suffix missing index information #17

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wflynny opened this issue Mar 31, 2020 · 0 comments
Open

head_suffix missing index information #17

wflynny opened this issue Mar 31, 2020 · 0 comments

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@wflynny
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wflynny commented Mar 31, 2020 •
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Besides sort order, I would expect that FASTQs generated from the bam should be identical to the original FASTQs. However, the head_suffix is hardcoded as :N:0:0 rather than the format :N:0:{index}. E.g.:

@A00739:209:HNTY3DMXX:2:1101:1090:1000 1:N:0:AGTGGAAC
...
@A00739:209:HNTY3DMXX:2:1101:4291:1000 1:N:0:AGTGGAAC
...
@A00739:209:HNTY3DMXX:2:1101:5195:1000 1:N:0:AGTGGAAC

Is it possible to include this information?
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@wflynny