ion.html#cb706-6" tabindex="-1"></a><span class="va">TMP</span><span class="op">=</span><span class="va">$(</span><span class="fu">dirname</span> <span class="va">$(</span><span class="fu">readlink</span> <span class="at">-s</span> <span class="kw">`</span><span class="fu">which</span> snpEff<span class="kw">`</span><span class="va">))</span></span>
<span id="cb706-7"><a href="variant-annotation.html#cb706-7" tabindex="-1"></a><span class="co"># combine those to get the directory where the config file is</s