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aborted on example data #36

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dinovski opened this issue Jan 13, 2023 · 1 comment
Open

aborted on example data #36

dinovski opened this issue Jan 13, 2023 · 1 comment

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@dinovski
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Hi,

Installation of CONSENT and dependencies completed without any warnings or issues on a GNU/Linux VM:
Linux ip-172-26-3-204 5.10.0-19-cloud-amd64 #1 SMP Debian 5.10.149-2 (2022-10-21) x86_64 GNU/Linux

but the example failed with the following error:

./CONSENT-correct --in example/reads.fasta --out example/correctedReads.fasta --type PB
[Fri Jan 13 16:19:16 UTC 2023] Overlapping the long reads (minimap2)
[Fri Jan 13 16:19:25 UTC 2023] Correcting the long reads
free(): invalid next size (normal)
./CONSENT-correct: line 202: 321161 Aborted $LRSCf/bin/CONSENT-correction -a $tmpdir/"$alignments" -s "$minSupport" -S "$maxSupport" -l "$windowSize" -k "$merSize" -c "$commonKMers" -A "$minAnchors" -f "$solid" -m "$windowOverlap" -j "$nproc" -r "$reads" -M "$maxMSA" -p "$LRSCf" >> "$out"

Any help would be appreciated!

@rmormando
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I get the same error message when I try to run it as well...did anyone find a solution?

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