Re: [Transdecoder-users] Transdecoder died with ret 6400 at line 498

[Brian H. <bh...@br...>]

Hi Matt,

Can you try pulling our latest dev code:

svn checkout svn://svn.code.sf.net/p/transdecoder/code-0/trunk
transdecoder-code-0

and see if it still errors out?   If so, we'll take it from there.

best,

~brian




On Sat, Jun 7, 2014 at 10:08 AM, Brown, Matthew <mw...@ms...> wrote:

>  Dear Brian,
>
>  My transdecoder install seems to work up until an error that I can not
> overcome during the best candidate selection. Do you have any suggestions?
>
>  Error, no gene obj retrieved based on identifier a2;23981|m.1 at
> /misc/home/mbrown/SOFTWARE/transdecoder_rel16JAN2014/util/../PerlLib/Gene_obj_indexer.pm
> line 61, <$fh> line 1.
> Gene_obj_indexer::get_gene('Gene_obj_indexer=HASH(0x1df59a0)',
> 'a2;23981|m.1') called at
> /misc/home/mbrown/SOFTWARE/transdecoder_rel16JAN2014/util/
> gene_list_to_gff.pl line 29
> Error, cmd: /misc/home/mbrown/SOFTWARE/transdecoder_rel16JAN2014/util/
> gene_list_to_gff.pl
> transdecoder.tmp.25824/longest_orfs.cds.scores.selected
> transdecoder.tmp.25824/longest_orfs.gff3.inx >
> transdecoder.tmp.25824/longest_orfs.cds.best_candidates.gff3 died with ret
> 6400 at /home/mbrown/SOFTWARE/transdecoder_rel16JAN2014/TransDecoder line
> 498.
>
>  Thank you in advance!
> Matt
>
> Matthew W. Brown, Ph.D.
>  Assistant Professor
>  Biological Sciences
>  Mississippi State University
>  008 Harned Hall
>  Mississippi State, MS 39762
>  662-325-2406
>  http://mwb250.biology.msstate.edu
>
>
>
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-- 
--
Brian J. Haas
The Broad Institute
http://broad.mit.edu/~bhaas