[maker-devel] maker terminated strangely

[shaohua.fan]

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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