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avierstr / amplicon_sorter

Sorts amplicons from Nanopore sequencing data based on similarity
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escape from single read fastqs #10

Closed omarkr8 closed 1 year ago

omarkr8 commented 1 year ago

Hi,

perhaps an unintentional bug, but I ran my loop on a folder of fastqs, it got stuck at a fastq containing a single read (presumably it would also get stuck if it filters down to a single read).

Of course we would normally just exclude these fastqs beforehand, but i didnt think to do so. the software was stuck at the " reading random 1 out of 1 sequences " bit for 5 hours before i terminated it. Presumably it cant go on to do comparisons if theres nothing else to compare to.

Im solving this on my end by incorporating a ifthen continue to my loop, skipping barcodes with fewer than x reads. but perhaps a built in escape would be good.

im still using the current release

avierstr commented 1 year ago

Ok, thanks for the notice. I'll incorporate it.

avierstr commented 1 year ago

fixed in version 2023-03-12