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<div class="textblock"><code>#include &lt;iostream&gt;</code><br />
<code>#include &lt;unistd.h&gt;</code><br />
<code>#include &quot;remove_reads_from_amplicon.h&quot;</code><br />
<code>#include &quot;call_consensus_pileup.h&quot;</code><br />
<code>#include &quot;call_variants.h&quot;</code><br />
<code>#include &quot;trim_primer_quality.h&quot;</code><br />
<code>#include &quot;get_masked_amplicons.h&quot;</code><br />
<code>#include &quot;suffix_tree.h&quot;</code><br />
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void&#160;</td><td class="memItemRight" valign="bottom"><b>print_consensus_usage</b> ()</td></tr>
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const std::string&#160;</td><td class="memItemRight" valign="bottom"><b>VERSION</b> = &quot;1.0&quot;</td></tr>
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<h2 class="groupheader">Function Documentation</h2>
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<h2 class="memtitle"><span class="permalink"><a href="#a0ddf1224851353fc92bfbff6f499fa97">&#9670;&nbsp;</a></span>main()</h2>

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          <td class="memname">int main </td>
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<p>Main Function</p>
<p>This is where the command line arguments into iVar are parsed. iVar first parses the first argument and depending on the command it either returns the version or uses GNU getopt to parse the remaining arguments. </p>

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