[ensembl-dev] VEP error

[Matteo]

Hi Will,

I don't use --debug option in my command line, I only use these flags:

     --cache \
     --assembly GRCh37 \
     --offline \
     --force_overwrite \
     -v \
     --variant_class \
     --sift b \
     --poly b \
     --vcf_info_field ANN \
     --hgvs \
     --protein \
     --canonical \
     --check_existing \
     --gmaf \
     --pubmed \
     --species homo_sapiens \
     --failed 1 \
     --plugin LoFtool \
     --vcf

Thank you,

matteo

Il 23/05/2016 13:58, Will McLaren ha scritto:
> Hi Matteo,
>
> Remove the --debug flag from your command line; this is intended for 
> use only by VEP developers.
>
> Regards
>
> Will McLaren
> Ensembl Variation
>
> On 23 May 2016 at 12:35, Matteo <matteodeg at gmail.com 
> <mailto:matteodeg at gmail.com>> wrote:
>
>     Hi all,
>     I'm using the last VEP version (84).
>     I get this error:
>
>     Negative repeat count does nothing at
>     ~/NGS_TOOLS/ensembl-tools-release-84/scripts/variant_effect_predictor/Bio/EnsEMBL/Variation/Utils/VEP.pm
>     line 6906.
>     [>                                              ]    [ 0%
>     ]Negative repeat count does nothing at
>     /home/jarvis/NGS_TOOLS/ensembl-tools-release-84/scripts/variant_effect_predictor/Bio/EnsEMBL/Variation/Utils/VEP.pm
>     line 6906.
>     [>                                              ]    [ 0%
>     ]Negative repeat count does nothing at
>     /home/jarvis/NGS_TOOLS/ensembl-tools-release-84/scripts/variant_effect_predictor/Bio/EnsEMBL/Variation/Utils/VEP.pm
>     line 6906.
>     [===============================================]  [ 100% ]
>
>     However, the annotation seems to be ok. Any idea?
>     Thanks,
>
>     Matteo
>
>     _______________________________________________
>     Dev mailing list Dev at ensembl.org <mailto:Dev at ensembl.org>
>     Posting guidelines and subscribe/unsubscribe info:
>     http://lists.ensembl.org/mailman/listinfo/dev
>     Ensembl Blog: http://www.ensembl.info/
>
>
>
>
> _______________________________________________
> Dev mailing list    Dev at ensembl.org
> Posting guidelines and subscribe/unsubscribe info: http://lists.ensembl.org/mailman/listinfo/dev
> Ensembl Blog: http://www.ensembl.info/

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mail.ensembl.org/pipermail/dev_ensembl.org/attachments/20160523/6847906a/attachment.html>