voutcn / megahit

Ultra-fast and memory-efficient (meta-)genome assembler
http://www.ncbi.nlm.nih.gov/pubmed/25609793
GNU General Public License v3.0
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Which minimum kmer is supposed to be used on the 701G merged single-end .fa reads? #334

Open B-1991-ing opened 2 years ago

B-1991-ing commented 2 years ago

Dear megabit support team,

My two megabit command lines stopped after the 41 Hours running. Here, I pasted the error, log and command line of one running. Could you help me check what is the reason?

Error: megahit_lake_backup.err.txt

Log: log.txt

Command line: /services/tools/megahit/1.2.9/bin/megahit --presets meta-large --min-contig-len 1000 --k-min 27 --k-max 127 --k-step 10 --kmin-1pass --min-count 2 --no-mercy -t 30 -m 0.8 --mem-flag 2 -r ${se_fa} --out-dir ${megahit_out}

Thank you very much.

Best,

Bing

B-1991-ing commented 2 years ago

Dear megabit support team,

I already tried "--kmin-1pass" in my command line, why it still assembles from k27 instead of choosing a bigger Kmer?

Best,

Bing