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<div class="moz-cite-prefix">Hi Will,<br>
<br>
I got the exact same warnings with 79_GRCh38 cache (indexed
previosuly with convert_cache)<br>
Then I decided to try with 80_GRCh38 cache and API version 80. I
didn't index it and I'm getting the same warnings. Tomorrow I'll
index 80_GRCh38 cache and report "info.txt".<br>
<br>
Regards,<br>
Guillermo.<br>
<br>
El 10/06/2015 a las 17:59, Will McLaren escribió:<br>
</div>
<blockquote
cite="mid:CAMVEDX1aiXPxrNxDzTh0XPMFDuyE1RHvN3fZ3o7m0HeYFL_RXg@mail.gmail.com"
type="cite">
<div dir="ltr">Hi Guillermo,
<div><br>
</div>
<div>Did you say you had run <a moz-do-not-send="true"
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 moz-do-not-send="true"
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
moz-do-not-send="true"
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 moz-do-not-send="true"
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>
<br>
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<br>
</blockquote>
</div>
<br>
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</blockquote>
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