[ensembl-dev] Uninitialized variable in reverse in Sequence.pm

[Sarah Hunt]

Hi James,

What naming convention is used in genome.fa? This problem has been 
reported previously with sequences named 'chr1'  etc. rather than the 
Ensembl standard '1' etc. This causes a problem for the hgvs trancsript 
level annotation.

Best wishes,

Sarah

On 03/09/2014 21:02, James Knight wrote:
> I am running VEP, from release 76, using —offline, --everything and "--fasta genome.fa" (to get HGVS annotations while still offline).  When I do this, this error message is output numerous times:
>
> Use of uninitialized value in reverse at /home/jk2269/soft/ensembl-tools-release-76/scripts/variant_effect_predictor/Bio/EnsEMBL/Utils/Sequence.pm line 90.
>
> Is this a bug?
>
>
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