[maker-devel] Missing files for some contains

[Carson Holt]

If there are no trnasscan results for the contig then there will be no trnascan fasta. The same is true for each of the other feature types.

—Carson




> On May 4, 2015, at 6:37 AM, Muriel Gros-Balthazard <muriel.grosb at gmail.com> wrote:
> 
> Hello,
> 
> After running Maker, I have many directories since I have many contigs.
> 
> Each directory contains these files :
> .gff                                      
> .maker.augustus.transcripts.fasta 
> .maker.augustus_masked.proteins.fasta
> .maker.augustus.proteins.fasta
> .maker.augustus_masked.transcripts.fasta
> .maker.transcripts.fasta
> .maker.trnascan.transcripts.fasta
> .maker.proteins.fasta
> .maker.non_overlapping_ab_initio.transcripts.fasta  
> .maker.non_overlapping_ab_initio.proteins.fasta
> run.log
> and the directory  theVoid.
> 
> However, for some contigs, one or several files are missing.
> I have more than 50% of contig directory missing the trnascan file.
> Some are missing also the two files « ..non overlapping.. »
> Some miss even more.
> 
> However, for all these contigs for which files are missing, I have the gff file and it’s written FINISHED in the log file.
> So, my questions are :
> 	- why are those files missing ?
> 	- is it problematic ? Does it mean something didn’t work well ?
> 	- should I rerun Maker on these contigs ?
> 
> Thank you !
> 
> Muriel
> _______________________________________________
> maker-devel mailing list
> maker-devel at box290.bluehost.com
> http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://yandell-lab.org/pipermail/maker-devel_yandell-lab.org/attachments/20150504/fec9136b/attachment-0003.html>