<div dir="ltr">The main branch code for 71 contains the fix.<div><br></div><div style>Will</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On 4 June 2013 12:31, 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>
It must be my API then. Should I download it from Ensembl website
or from a special repository with fix?<br>
<br>
Regards,<br>
Guillermo.<div><div class="h5"><br>
<br>
On 06/04/2013 01:25 PM, Will McLaren wrote:<br>
</div></div></div><div><div class="h5">
<blockquote type="cite">
<div dir="ltr">Have you updated your API?
<div><br>
</div>
<div>It works OK for me, here's a snippet of the output
I get from:</div>
<div><br>
</div>
<div>perl <a href="http://variant_effect_predictor.pl" target="_blank">variant_effect_predictor.pl</a>
-i maf.vcf -gmaf -cache -force<br>
</div>
<div><br>
</div>
<div>
<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>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><br>
<br>
On 06/04/2013 10:05 AM, Will McLaren wrote:<br>
</div>
</div>
<div>
<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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