<div dir="ltr">Hi Kirsley,<div><br></div><div>The only parameter you have to change for GRCh37 is the port, by adding "--port 3337" to your VEP command. The plugin will only work when using --cache (recommended) or --database; it will not work with --offline.</div><div><br></div><div>You also need the ensembl-compara API installed, which is not installed by the VEP installer script. </div><div><br></div><div><a href="https://github.com/Ensembl/ensembl-compara">https://github.com/Ensembl/ensembl-compara</a><br></div><div><br></div><div><a href="http://www.ensembl.org/info/docs/api/api_installation.html">http://www.ensembl.org/info/docs/api/api_installation.html</a><br></div><div><br></div><div>Will</div></div><div class="gmail_extra"><br><div class="gmail_quote">On 13 August 2015 at 14:36, Kirsley Chennen <span dir="ltr"><<a href="mailto:kchennen@unistra.fr" target="_blank">kchennen@unistra.fr</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="#000000">
    Hi Will,<br>
                Am still having the same issue with the latest version
    of the Convervation.pm plugin :<br>
    <br>
    2015-08-13 15:31:17 - Failed to instantiate plugin Conservation:
    Failed to connect to compara database<br>
    <br>
    <br>
    Do we have to the config for the database in the vep.ini file?<br>
    <br>
        # reconnect to DB without species param<br>
        my $config = $self->{config};<br>
        $reg->load_registry_from_db(<br>
            -host       => $config->{host},<br>
            -user       => $config->{user},<br>
            -pass       => $config->{password},<br>
            -port       => $config->{port},<br>
            -db_version => $config->{db_version},<br>
            -no_cache   => $config->{no_slice_cache},<br>
        );<br>
    <br>
    If that's so, what are the parameters for the GRCh37 human assembly?<br>
    <br>
    Regards<span class="HOEnZb"><font color="#888888"><br>
    Kirsley</font></span><div><div class="h5"><br>
    <br>
    <br>
    <div>On 13/08/2015 14:46, Will McLaren
      wrote:<br>
    </div>
    <blockquote type="cite">
      <div dir="ltr">Hi Guillermo,
        <div><br>
        </div>
        <div>Thanks for the report, I've pushed a fix to the plugin on
          GitHub.</div>
        <div><br>
        </div>
        <div>Regards</div>
        <div><br>
        </div>
        <div>Will</div>
      </div>
      <div class="gmail_extra"><br>
        <div class="gmail_quote">On 13 August 2015 at 12:36, 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 using latest version of VEP Conservation plugin
              available in github. However it's not working for me:<br>
              <br>
              2015-08-13 13:35:17 - Failed to instantiate plugin
              Conservation: Failed to connect to compara database<br>
              <br>
              Is this a bug?<br>
              <br>
              Regards,<br>
              Guillermo.<br>
              <div><br>
              </div>
            </div>
            <br>
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            <br>
          </blockquote>
        </div>
        <br>
      </div>
      <br>
      <fieldset></fieldset>
      <br>
      <pre>_______________________________________________
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</pre>
    </blockquote>
    <br>
  </div></div></div>

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