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

[Andrew Barron]

Sent from my iPhone

> On 4 Sep 2014, at 17:19, "Sarah Hunt" <seh at ebi.ac.uk> wrote:
> 
> 
> 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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> 
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