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Dear Magali, Dear Will,<br>
<br>
Thanks for your reply. Sorry I didn't see that Chromosome 21 make
no sense for pig. The question rose up since in testing VEP
endpoint I saw this error while the same query was successful
(with no error and no results) on your previous version of REST
server.<br>
<br>
I think I will test my functions with appropriate data.<br>
<br>
Thank you for you support,<br>
<br>
regards,<br>
<br>
Paolo.<br>
<br>
<br>
<br>
Il 09/12/2014 17.05, Will McLaren ha scritto:<br>
</div>
<blockquote
cite="mid:CAMVEDX0+dSO=iB6=zEkdxZNckSde=ySN4w5rbXnTg5Xr_j7h0g@mail.gmail.com"
type="cite">
<div dir="ltr">Hi Paolo,
<div><br>
</div>
<div>The current Pig assembly does not have a chromosome 21:</div>
<div><br>
</div>
<div><a moz-do-not-send="true"
href="http://www.ensembl.org/Sus_scrofa/Location/Genome">http://www.ensembl.org/Sus_scrofa/Location/Genome</a><br>
</div>
<div><br>
</div>
<div>Of course, the error message you are seeing is not
especially helpful; we will look into a fix for this.</div>
<div><br>
</div>
<div>Regards</div>
<div><br>
</div>
<div>Will McLaren<br>
Ensembl Variation</div>
</div>
<div class="gmail_extra"><br>
<div class="gmail_quote">On 5 December 2014 at 14:21, Paolo
Cozzi <span dir="ltr"><<a moz-do-not-send="true"
href="mailto:paolo.cozzi@itb.cnr.it" target="_blank">paolo.cozzi@itb.cnr.it</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex"><br>
Dear all,<br>
<br>
Using the new release of REST - VEP endpoint, I got a 400
error code for pig. More precisely, this is the command line
I used:<br>
<br>
$ curl -H "content-type:application/json" -H
"accept:application/json" --data '{ "variants" : ["<a
moz-do-not-send="true" href="tel:21%2026960070"
value="+12126960070" target="_blank">21 26960070</a>
rs116645811 G A . . .", "<a moz-do-not-send="true"
href="tel:21%2026965148" value="+12126965148"
target="_blank">21 26965148</a> rs1135638 G A . . ." ] }'
<a moz-do-not-send="true"
href="http://rest.ensembl.org/vep/pig/region"
target="_blank">http://rest.ensembl.org/vep/pig/region</a>
--verbose<br>
<br>
And this is the result:<br>
<br>
* About to connect() to <a moz-do-not-send="true"
href="http://rest.ensembl.org" target="_blank">rest.ensembl.org</a>
port 80 (#0)<br>
* Trying 193.62.52.232... connected<br>
* Connected to <a moz-do-not-send="true"
href="http://rest.ensembl.org" target="_blank">rest.ensembl.org</a>
(193.62.52.232) port 80 (#0)<br>
> POST /vep/pig/region HTTP/1.1<br>
> User-Agent: curl/7.19.7 (x86_64-redhat-linux-gnu)
libcurl/7.19.7 NSS/<a moz-do-not-send="true"
href="http://3.14.0.0" target="_blank">3.14.0.0</a>
zlib/1.2.3 libidn/1.18 libssh2/1.4.2<br>
> Host: <a moz-do-not-send="true"
href="http://rest.ensembl.org" target="_blank">rest.ensembl.org</a><br>
> content-type:application/json<br>
> accept:application/json<br>
> Content-Length: 90<br>
><br>
< HTTP/1.1 400 Bad Request<br>
< Vary: Content-Type<br>
< Content-Length: 168<br>
< Content-Type: application/json<br>
< X-Runtime: 0.141490<br>
< X-RateLimit-Limit: 55000<br>
< X-RateLimit-Reset: 2961<br>
< X-RateLimit-Period: 3600<br>
< X-RateLimit-Remaining: 54997<br>
< Date: Fri, 05 Dec 2014 14:10:39 GMT<br>
< Connection: close<br>
<<br>
* Closing connection #0<br>
{"error":"Can't call method \"seq_region_Slice\" on an
undefined value at /home/ensadmin/src/ensembl-variation/modules/Bio/EnsEMBL/Variation/Utils/VEP.pm
line 4223.\n"}<br>
<br>
Thank you for your support,<br>
<br>
Regards,<br>
<br>
Paolo<br>
<br>
<br>
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</blockquote>
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