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How to use USE_SEQUENTIAL_FASTQS option #1081

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romagnolid opened this issue Jan 17, 2018 · 0 comments
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How to use USE_SEQUENTIAL_FASTQS option #1081

romagnolid opened this issue Jan 17, 2018 · 0 comments
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romagnolid commented Jan 17, 2018 •
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Documentation request

Tool(s) involved

FastqToSam, USE_SEQUENTIAL_FASTQS

Description

It's not entirely clear how to use this option: should I provide only the suffix with F1? How does it work with paired-end reads?
nrockweiler added a commit to nrockweiler/picard that referenced this issue Jun 12, 2023
@nrockweiler
Fix broadinstitute#1081. Make --USE_SEQUENTIAL_FASTQS help message mo…
e1d6aad 
…re user friendly in FastqToSam.java

 - Issue broadinstitute#1081 raised that help message for FastqToSam.java's --USE_SEQUENTIAL_FASTQS was not very intuititive.

 - Updated help message with more explicit usage (specific text on how to use the option and example commands).
@nrockweiler nrockweiler mentioned this issue Jun 12, 2023
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@vdauwera @romagnolid