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  • velvetg "irregular sequence" error

    Hello,
    I've been trying to run velvetg for a de novo assembly project and have encountered an error I haven't seen before. I'm not sure where to start looking to troubleshoot this. Has anyone seen this before?

    [757.395968] Sequence 34000000 / 134431570
    [762.312525] Sequence 35000000 / 134431570
    [767.392179] Sequence 36000000 / 134431570
    [773.210880] Sequence 37000000 / 134431570
    [778.708129] Sequence 38000000 / 134431570
    [783.844449] Sequence 39000000 / 134431570
    [788.606782] Sequence 40000000 / 134431570
    [793.582053] Sequence 41000000 / 134431570
    [793.648029] Irregular sequence file: are you sure your Sequence and Roadmap file come from the same source?

  • #2
    It looks like you may be re-using the same folder over again for different assemblies and there is inconsistent files in it. Try running velveth + velvetg with a new folder name, or delete the existing folder completely.

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    • #3
      Thanks!

      Thanks Torst - changing the folder name solved it.

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