pan></span>
<span id="cb706-8"><a href="variant-annotation.html#cb706-8" tabindex="-1"></a><span class="va">SNPEFFDIR</span><span class="op">=</span><span class="va">${FIRSTDIR}${TMP</span><span class="op">/</span><span class="ss">..</span><span class="op">/</span><span class="va">}</span></span></code></pre></div>
<p>Now, the variable <code>$SNPEFFDIR</code> holds the directory where the
config file is. That will be useful.</p>
<div id="getting-a-gff-file" class="section level3 hasAnchor" number="25.0.1">
