[maker-devel] maker terminated strangely

[Carson Holt]

Yes.

Thanks,
Carson


From:  "shaohua.fan" <lengjingmao at gmail.com>
Date:  Monday, 25 March, 2013 10:07 AM
To:  Carson Holt <carsonhh at gmail.com>
Cc:  <maker-devel at yandell-lab.org>
Subject:  Re: [maker-devel] maker terminated strangely

Hi Carson, 

Do you mean standard output from maker? If yes, I need to upload the file to
our ftp server, since it is quite big around 1.1 Gb.

Shaohua


2013/3/25 Carson Holt <carsonhh at gmail.com>
> Could you send your captured standard error.  That would contain messages that
> highlight the specific cause.
> 
> Thanks,
> Carson
> 
> 
> From:  "shaohua.fan" <lengjingmao at gmail.com>
> Date:  Monday, 25 March, 2013 9:49 AM
> To:  <maker-devel at yandell-lab.org>
> Subject:  [maker-devel] maker terminated strangely
> 
> Hi Maker developers,
> 
> I met a problem when I was using Maker version 2.27 beta version that the
> pipeline terminated in the middle of the process without any error message.
> 
> 
> The genome I am working with is a Eukaryotic genome which is consisted by
> around 6000 scaffolds. I combined de novo (Augustus and SNAP) and evidence
> based (protein from a closely related species and transcriptome from the same
> species) for the gene prediction (the genome is already repeat masked). The
> MPI (mpich2 version 1.5) enabled maker was run on a cluster by using SGE. I
> checked with the administrator of our cluster, there is no limitation of SGE
> job. 
> 
> The maker was run by using  mpiexec -n 48  /home/shafan/maker/bin/maker
> maker_opts.ctl maker_bopts.ctl maker_exe.ctl
> 
> I attached my maker_opt.ctl, please let me know if you need any information
> for this problem.
> 
> Thanks a lot!
> 
> Shaohua 
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