[ensembl-dev] pipeline run with status 'VOID'

[mr6]

Hi,

As the log file says, the sequence is shorter than 3 nucleotides, or the
non-repeatmasked sequence is, and Genscan is confused about it, therefore
the VOID status.
The job is still considered succesfully run, so it should not affect any
downstream analyses.

What do you mean by "the pipeline stops" ? What are you expecting it to be
doing ?


Regards,
mag


On Fri, 10 Jun 2011 12:12:14 +0000, 江JWK <biology0046 at hotmail.com> wrote:
> Hi
> 
> I have try to test the genebuild pipeline,
> the analysis i used are repeatmask, genscan, trf,
> 
> but after all other jobs are finished, i have three jobs with status
> "VOID":
> 
>  12235 VOID     2011-06-10 17:21:23 y          
> 
> 
> I check the stderr file for these jobs, and found that :
> Running job 12235
> Module is Genscan
> input id is XXX
> Analysis is Genscan
> 
> 
> Need at least 3 nucleotides - maybe your sequence was fully repeatmasked
> ...
> ...
> ...
> Updated successful job 12235
> Finished job 12235
> 
> My question is that 'VOID' stands for what?
> 
> Now the pipeline stop at this point for hours, any suggestions?