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[Suggestion] Allow output to stdout #21

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apcamargo opened this issue Oct 21, 2020 · 2 comments
Open

[Suggestion] Allow output to stdout #21

apcamargo opened this issue Oct 21, 2020 · 2 comments
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@mohsenzakeri @fataltes
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@apcamargo
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Currently, the only way to get a bam file from puffalign is to write a sam and then convert it in a separate command. If puffalign could output to stdout it would be possible to pipe it into samtools to get a bam directly.
@rob-p
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rob-p commented Oct 21, 2020

This is a great suggestion. We'll work on it.

@apcamargo
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Thanks Rob!

I just started testing puffalign and I'm really excited with it. I may open some other issue tickets soon :)

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@mohsenzakeri mohsenzakeri

@fataltes fataltes

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@rob-p @mohsenzakeri @fataltes @apcamargo