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  • usearch --cluster causes "Segmentation fault (core dumped)"

    I am running USEARCH 5.1.221 in a ubuntu pangolin 64 bit, and I am trying to run the following command, which is part of the otupipe.bash,

    Code:
    usearch --cluster temp/derep.fas --consout temp/cons.fa --id 0.97 --log temp/cluster_err.log --w 20 --slots 16769023 --maxrejects 64 --sizein --sizeout --usersort
    And I get

    Code:
    3517 Segmentation fault      (core dumped)
    I run any other option in usearch and it works fine, please help

  • #2
    Just a guess: you might be running out of memory. If that is the case, you might want to try --mergesort, but I'm not sure if this works in conjunction with --usersort.

    Andreas

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