So I am trying to change my MAXKMERLENGTH to 99....this is a straight forward thing...but for some reason when i change it at either the command line or in the makefile it stays 31. I even see the maxkmerlength=99 displayed while it compiles, but when I run velveth to see the compilation settings it still displays 31?? Anyone else experience this?
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We have successfully compiled velvet with that length set to 60 and I see references on the net where people have used numbers higher than 100.
Have you looked carefully through the compilation log to see if there was any clue about your observation. -
it looks like you have to recompile velvet for the new length you want. I have not tried this but there looks to be a goo explanation here...
https://www.biostars.org/p/44211/Comment
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What were the exact commands used during compilation? I've changed these settings quite a few times and don't recall any issues.Comment
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Did you try
They posted the solution on BioStars here is the link,Code:make 'MAXKMERLENGTH=99'
https://www.biostars.org/p/44211/Comment
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