search

ruanjue / wtdbg2

Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly
GNU General Public License v3.0
513 stars 94 forks source link

polish error #49

Closed gentlewasp closed 5 years ago

gentlewasp commented 5 years ago

I got an error in polish step using the new release of version 2.2. Is it a bug or caused by wrong parameters. [@localhost canu1.8_wtdbg2]$ wtpoa-cns -t $cores -d tp.canu.wtdbg.ctg.lay1.fa -i tp.canu.wtdbg.ctg.lay2.map.sam -fo tp.canu.wtdbg.ctg.lay2.fa -- total memory 396031892.0 kB -- available 334581040.0 kB -- 120 cores -- Starting program: wtpoa-cns -t 24 -d tp.canu.wtdbg.ctg.lay1.fa -i tp.canu.wtdbg.ctg.lay2.map.sam -fo tp.canu.wtdbg.ctg.lay2.fa -- pid 100642 -- date Mon Dec 3 15:16:59 2018 wtpoa-cns: wtpoa.h:472: init_samblock: Assertion `bstep <= bsize && 2 * bstep >= bsize' failed.

ruanjue commented 5 years ago

https://github.com/ruanjue/wtdbg2/commit/aad2f20f896c6ea93ac33b7c4549163942b3bc07 Please have a test with the updated wtpoa-cns.

gentlewasp commented 5 years ago

Hi Jue, Thanks for the update. However, the same error occurred in my analyses, as below. wtpoa-cns: wtpoa.h:472: init_samblock: Assertion `bstep <= bsize && 2 * bstep >= bsize' failed. Thanks for your help. shujun

ruanjue commented 5 years ago

https://github.com/ruanjue/wtdbg2/commit/c3fb7d0e4607f3a8796d59eaed14058ac37d3f0a I had tested this update on e.coli.

gentlewasp commented 5 years ago

Hi Jue, it works well. Thanks very much. shujun