<div dir="ltr">Hi Guillermo,<div><br></div><div>Did you say you had run <a href="http://convert_cache.pl">convert_cache.pl</a> in an earlier email?</div><div><br></div><div>This may be the issue here. Can you send on the content of the file [cache_dir]/homo_sapiens/80_GRCh37/info.txt</div><div><br></div><div>It may be you need to re-run the convert_cache script, possibly after downloading the original cache again.</div><div><br></div><div>Will</div></div><div class="gmail_extra"><br><div class="gmail_quote">On 10 June 2015 at 15:40, Guillermo Marco Puche <span dir="ltr"><<a href="mailto:guillermo.marco@sistemasgenomicos.com" target="_blank">guillermo.marco@sistemasgenomicos.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
  

    
  
  <div text="#000066" bgcolor="#FFFFFF">
    Dear devs,<br>
    <br>
    I'm experiencing the following warnings when using vep local cache
    with variant_effect_predictor script:<br>
    <br>
    <blockquote>
      <pre>Argument "-/C" isn't numeric in numeric eq (==) at /share/apps/src/ensembl_80-variation/modules/Bio/EnsEMBL/Variation/Utils/VEP.pm line 6218.</pre>
      <pre>Use of uninitialized value in split at /share/apps/src/ensembl_80-variation/modules/Bio/EnsEMBL/Variation/Utils/VEP.pm line 6223.</pre>
    </blockquote>
    <br>
    If no cache is used warnings disappear.<br>
    <br>
    Input VCF: example_GRCh38.vcf  (inside
    <a href="https://github.com/Ensembl/ensembl-tools/archive/release/80.zip" target="_blank">https://github.com/Ensembl/ensembl-tools/archive/release/80.zip</a>)<br>
    Cache downloaded from:
<a href="ftp://ftp.ensembl.org/pub/release-80/variation/VEP/homo_sapiens_vep_80_GRCh38.tar.gz" target="_blank">ftp://ftp.ensembl.org/pub/release-80/variation/VEP/homo_sapiens_vep_80_GRCh38.tar.gz</a><br>
    <br>
    Best regards,<br>
    Guillermo.<br>
  </div>

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