Consensus exited - dbgcns.h:1122 --

[msikic]

Hi,

I have tried to run redbean on NA12878 genome. After assembly successfully finished (/usr/bin/time -v wtdbg2 -x ont -g3g -t 64 -i rel_6.fastq.gz -o redbean_NA12878 2> err_redbean ) I run the consensus and got the following message

-- total memory 1056751744.0 kB -- available 399633452.0 kB -- 256 cores -- Starting program: wtdbg-cns -t 64 -i redbean_NA12878.ctg.lay.gz -o redbean_NA12878.ctg.fa -- pid 106509 -- date Fri Jun 12 08:49:55 2020

-- something wrong, nb = 21759(K0869), ne = 4724(K156860) in DP_best_path_DirectFuzzyBruijnGraph -- dbgcns.h:1122 -- Command exited with non-zero status 1

I have tried twice and got the same message.

The version is: wtdbg-cns 1.1

Best,

Mile

[ruanjue]

Please run wtpoa-cns instead. The base accuracy of contigs from wtdbg-cns is lower than wtpoa-cns. I haven't updated wtdbg-cns for years.

[ahcm]

Mabe remove wtdbg-cns from default build to avoid confusion.