<div dir="ltr">Have you updated your API?<div><br></div><div style>It works OK for me, here's a snippet of the output I get from:</div><div style><br></div><div style>perl <a href="http://variant_effect_predictor.pl">variant_effect_predictor.pl</a> -i maf.vcf -gmaf -cache -force<br>
</div><div style><br></div><div style><div>#Uploaded_variation Location Allele Gene Feature Feature_type Consequence cDNA_position CDS_position Protein_position Amino_acids Codons Existing_variation Extra</div>
<div>17_41246532_T/- 17:41246532 - ENSG00000012048 ENST00000352993 Transcript intron_variant,feature_truncation - - - - - rs80357618,rs80357911,CD951606 CLIN_SIG=untested,untested</div>
<div><br></div><div style>Will</div></div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On 4 June 2013 12:10, 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 bgcolor="#FFFFFF" text="#000066">
<div>Hello Will,<br>
<br>
Try with this input:<br>
<br>
<a href="https://github.com/guillermomarco/vep_plugins_71/blob/master/wrong_gmaf/wrong.vcf" target="_blank">https://github.com/guillermomarco/vep_plugins_71/blob/master/wrong_gmaf/wrong.vcf</a><br>
<br>
Regards,<br>
Guillermo.<div class="im"><br>
<br>
On 06/04/2013 10:05 AM, Will McLaren wrote:<br>
</div></div><div class="im">
<blockquote type="cite">
<div dir="ltr">Hi Guillermo,
<div><br>
</div>
<div>Can you provide some input that produces this problem?</div>
<div><br>
</div>
<div>It works OK for me...</div>
<div><br>
</div>
<div>Will</div>
</div>
<div class="gmail_extra">
<br>
<br>
<div class="gmail_quote">On 3 June 2013 10:02, 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 bgcolor="#FFFFFF" text="#000066">
<div>Hello Will,<br>
<br>
Are you sure bug was fixed? I'm getting some ":,:"
outputs. I'm using tab delimited format not VCF as
output.<br>
<br>
Regards,<br>
Guillermo.
<div>
<div><br>
<br>
On 05/22/2013 12:44 PM, Duarte Molha wrote:<br>
</div>
</div>
</div>
<blockquote type="cite">
<div>
<div>
<div dir="ltr">
<div class="gmail_extra"><br>
<div class="gmail_quote">On Wed, May 22, 2013 at
11:42 AM, Duarte Molha <span dir="ltr"><<a href="mailto:duartemolha@gmail.com" target="_blank">duartemolha@gmail.com</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"> </blockquote>
</div>
<br>
Sorry will... replied essentially saying the
same thing you did... Should have refreshed my
email client before sending :)</div>
<div class="gmail_extra"><br>
</div>
<div class="gmail_extra">Thank you for the fix<br>
<br clear="all">
<div><font color="#999999">=========================<br>
Duarte Miguel Paulo Molha <br>
</font>
<div><font color="#999999"> <a href="http://about.me/duarte" target="_blank">http://about.me/duarte</a>
<br>
=========================</font></div>
</div>
</div>
</div>
<br>
<fieldset></fieldset>
<br>
</div>
</div>
</blockquote>
</div>
</blockquote>
</div>
</div>
</blockquote>
<br>
</div></div>
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<br></blockquote></div><br></div>