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rhysnewell / aviary

A hybrid assembly and MAG recovery pipeline (and more!)
GNU General Public License v3.0
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--no-coassembly flag? #219

Open wwood opened 1 week ago

wwood commented 1 week ago

Hey,

I reckon it is a little anti-intuitive that when multiple readsets are specified, that only the first is used for assembly by default.

WDYT about requiring users to explicitly use --coassemble or a new flag --no-coassembly for recover when no input assembly is given, otherwise erroring out? Just lost a day's compute time because I mistakenly didn't (modified the wrong script).

Thanks.

rhysnewell commented 1 week ago

I'd be open to adding in new flags, but I don't think coassembly should be the default