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comprna / RATTLE

Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing
GNU General Public License v3.0
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Segmentation fault due to N containing transcripts #36

Closed abs-yy closed 2 years ago

abs-yy commented 2 years ago

Hi, big thanks for the great software! I've been trying out RATTLE for my cDNA-Seq ONT reads (corrected with TranscriptClean) and kept getting segmentation fault (core dumped) in a subset of the reads. The problem was that several reads contained N's, probably from the TranscriptClean correction. Removing these reads resulted in a complete run. Would it be able to raise some kind of error when the reads contain N's?

eileen-xue commented 2 years ago

Hi,

We provide an update to show an error message when reads contain N's.

Please let us know if there are any questions.

Thanks, Eileen

abs-yy commented 2 years ago

Hi Eileen, Thanks for the swift update!