[MUMmer-help] Whole genome length exceeding the max limit for mummer

[Makkapati, V. <vis...@ph...>]

Hi,

I reported the following error when I tried to compare whole genomes of hg19 and Chinese using mummer. Is there a way by which I can increase the maximum limit of textlen?

./mummer -mum -b -c /Users/ Hg19/WholeGenome_Hg19.fa /Users/Chinese/chinese_whole_genome.fa > hg19_chinese_whole.mums
# reading input file " /Users/ Hg19/WholeGenome_Hg19.fa" of length 3095694007
# construct suffix tree for sequence of length 3095694007
# (maximum reference length is 536870908)
# (maximum query length is 4294967295)
# process 30956940 characters per dot
./mummer: suffix tree construction failed: textlen=3095694007 larger than maximal textlen=536870908

Regards,
Vishnu

Vishnu Vardhan Makkapati
Senior Scientist, Philips Research Asia - Bangalore
Philips Innovation Campus, Philips Electronics India Limited
Manyata Tech Park, Nagavara
Bangalore - 560 045, Karnataka, India
Phone: +91-80-41892241, Fax: +91-80-41892265
E-mail: vis...@ph...<mailto:vis...@ph...>
Intranet: pww.research.philips.com
Internet: www.research.philips.com<http://www.research.philips.com>


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