Comments (2)
ehrenbentz
commented on August 23, 2024
I get the exact same error. Any progress on figuring this out?
Thanks!
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comery
commented on August 23, 2024
I am trying to assembly pre-assembled contigs generated by short reads with Pacbio reads using the command:
my-path/haslr.py -c scafSeq.fill.FG.gz -l pacbio_reads/B18-05-2020-2.fasta.gz -g 200m -x pacbio -o output -t 4 --aln-sim 0.9 --cov-lr 50
I also got the same error information:
[25-Feb-2021 21:09:11] removing overlaps in short read assembly... done
[25-Feb-2021 21:09:16] removing short sequences in short read assembly... done
[25-Feb-2021 21:09:17] aligning long reads to short read assembly using minimap2... done
[25-Feb-2021 22:16:01] assembling long reads using HASLR... failed
ERROR: "haslr_assemble" returned non-zero exit status
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Related Issues (20)
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