[maker-devel] maker terminated strangely

[Carson Holt]

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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