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marbl / Winnowmap

Long read / genome alignment software
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Is --split-prefix supported? #16

Open schorlton opened 3 years ago

schorlton commented 3 years ago

Hi, I see this option (--split-prefix) remains in the source code but has been removed from the help. --split-prefix is important to retain correct mappings on large indices that get broken into parts: https://github.com/lh3/minimap2/issues/141. Is it supported and functional?

Edit: it appears it works when mapping to a FASTA. However, I also got a segfault when trying to dump the index -d and then map to the dumped index...is this implemented?

Thanks!

cjain7 commented 3 years ago

--split-prefix is not supported; I can't remember now why I removed this option; but this was probably not compatible with Winnowmap's weighted-minimiser sampling technique.

schorlton commented 3 years ago

OK, thanks! That's rather unfortunate but understandable.