l00492"></a>00492       <span class="keywordflow">for</span>(uint cnt = 1; align != top_aligns.end(); ++align, ++cnt)
<a name="l00493"></a>00493         <a class="code" href="classSimSite3D_1_1ScoreRigidAlignments.html#6c5bf42335a29f8d6b64c3d163bd79f6">write_ligands</a>(align-&gt;second-&gt;frag_file, lig_file, align-&gt;second-&gt;R,
<a name="l00494"></a>00494                       align-&gt;second-&gt;T, cnt, mol_id, A_proj_output);
<a name="l00495"></a>00495     }
<a name="l00496"></a>00496 
<a name="l00