[maker-devel] Maker issues

[Carson Holt]

1.006902        Bio::Root::Version
/N/u/dstandag/Mason/local/src/PerlLibs/bioperl-live/Bio/Root/Version.pm

One thing I noticed, in the debug output is that you are using Bioperl live
(here -->  /N/u/dstandag/Mason/local/src/PerlLibs/bioperl-live).  It's fasta
indexer is broken.  I have an open bug I am trying to resolve with the
Bioperl developers, but for now use the CPAN version of Bioperl.

Thanks,
Carson




From:  Daniel Standage <daniel.standage at gmail.com>
Date:  Monday, 5 November, 2012 10:14 AM
To:  Carson Holt <carsonhh at gmail.com>
Cc:  Maker Mailing List <maker-devel at yandell-lab.org>
Subject:  Re: Maker issues

Debug output attached (bzip2 compressed).


--
Daniel S. Standage
Ph.D. Candidate
Bioinformatics and Computational Biology Program
Department of Genetics, Development, and Cell Biology
Iowa State University



On Mon, Nov 5, 2012 at 10:08 AM, Carson Holt <carsonhh at gmail.com> wrote:
> Thanks. Could you also run with the --debug flag set on the command line for a
> few minutes and send me that.
> 
> --Carson
> 
> 
> From:  Daniel Standage <daniel.standage at gmail.com>
> Date:  Monday, 5 November, 2012 10:05 AM
> To:  Carson Holt <carsonhh at gmail.com>, Maker Mailing List
> <maker-devel at yandell-lab.org>
> Subject:  Maker issues
> 
> Carson,
> 
> I updated to the latest development version, made sure the TMP directory is on
> native disk space, and relaunched. I have attached the output of the job that
> failed in <5 minutes. It looks pretty similar to the errors I got the last
> time I used the dev version.
> 
> --
> Daniel S. Standage
> Ph.D. Candidate
> Bioinformatics and Computational Biology Program
> Department of Genetics, Development, and Cell Biology
> Iowa State University
> 



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