Question: Metavelvet not producing "meta-velvetg.contigs.fa"
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gravatar for Vimac
12 weeks ago by
Vimac0
Vimac0 wrote:

Hi everyone :)

I'm having problems running Metavelvet on my Ubuntu 14/Biolinux 8.

I follow the tutorial step by step from http://metavelvet.dna.bio.keio.ac.jp/MV.html#install using the sample data they provide.

Velveth and velvetg work fine and I obtain the Graph2 file used in metavelvet. However, after running metavelvet (without apparent error) i do not get the "meta-velvetg.contigs.fa" I do get the "meta-velvetg.split-stats.txt" and "meta-velvetg.Graph2-stats.txt"

I've seen this other post C: Metavelvet fails at Scaffolding stage where they say that it might have to do with the compiler gcc version. I currently have gcc 4.9 but apparently metavelvet can only run with gcc 4.6 or lower. I tried downgrading to gcc 4.6 but for what I have seen it is not that easy nor advisable to downgrade gcc.

Any ideas how can I solve this problem? Is there a way to specifically install metavelvet using the gcc 4.6?

Thanks!

metavelvet gcc velvet assembly • 207 views
ADD COMMENTlink modified 12 weeks ago by WouterDeCoster20k • written 12 weeks ago by Vimac0
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