MUMmer共线性分析报错suffix tree construction failed: textlen=712946597 larger than maximal textlen=536870908

5 MUMmer共线性分析报错suffix tree construction failed: textlen=712946597 larger than maximal textlen=536870908

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$ nucmer -maxmatch -c 100 -p nucmer ../reference.fasta ../query.fa
1: PREPARING DATA
2,3: RUNNING mummer AND CREATING CLUSTERS
# reading input file "nucmer.ntref" of length 712946597
# construct suffix tree for sequence of length 712946597
# (maximum reference length is 536870908)
# (maximum query length is 4294967295)
# process 7129465 characters per dot
/usr/bin/mummer: suffix tree construction failed: textlen=712946597 larger
than maximal textlen=536870908
ERROR: mummer and/or mgaps returned non-zero

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omicsgene - 生物信息 2018-10-09 18:19

擅长：重测序,遗传进化,转录组,GWAS

我的版本是：MUMmer3.23

需要对mummer添加参数重新编译：

The size of your reference sequence is larger than is supported by default.
You can either break your reference into multiple files and run each
individually, or recompile the mummer package with:

> make clean
> make CPPFLAGS="-O3 -DSIXTYFOURBITS"

5 MUMmer共线性分析报错suffix tree construction failed: textlen=712946597 larger than maximal textlen=536870908

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