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Nextomics / NextDenovo

Fast and accurate de novo assembler for long reads
GNU General Public License v3.0
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Pulling corrected long reads with v2.3.0 #82

Closed KevinBredemeyer closed 3 years ago

KevinBredemeyer commented 3 years ago

Hello, I was wondering how to go about pulling reads corrected by NextDenovo v2.3.0? When I was running v2.2-beta I used the following command: $ cat nextdenovo-OUT/02.cns_align/01.get_cns.sh.work/get_cns*/cns.fasta > next.correctedReads.fasta

But it appears naming/location of the corrected reads has been changed in the most recent version.

Running on linux with python v3.7.4

Thanks!

moold commented 3 years ago

Hi, you can check the log file named pidXXX.log.info, it will tell you the corrected reads are located at work_dir/02.cns_align/01.seed_cns.sh.work/seed_cns*/cns.fasta

KevinBredemeyer commented 3 years ago

Great, thank you!