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From: grid b. <gri...@gm...> - 2011-05-25 21:12:30
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Hi Collegues, I tried use mummer for bacterial genomes alignment. The command line is : ./mummer -maxmatch -b ref.fa query.fa > xaa.out Their are 200 reference sequences and the total length is : 752255529 There was error information reported by mummer: " ./mummer: suffix tree construction failed: textlen=752255529 larger than maximal textlen=536870908 " I want to know if there is limit for reference file size and sequences number and also, I find mummer occupied huge memory (about 6GB) when I gave one about 300MB reference file. How should I do like this case? Do I have to split reference file to one sequence one file to do alignment? Any ideas? thank you, |