<div dir="ltr"><div class="gmail_default" style="font-size:small">Hi all</div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small">I've tried to run Modeller locally from Chimera (versión 1.11.2(build 41380) 2016-12-05 19:45 UTC. Platform Linux64. Windowing system: x11), but when it finishes, the model is not loaded inside Chimera. The log window give me the following output: </div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default"><div class="gmail_default"><i><font size="1">Model 0 (model1.pdb) appears to be a protein without secondary structure assignments.</font></i></div><div class="gmail_default"><i><font size="1">Automatically computing assignments using 'ksdssp' and parameter values:</font></i></div><div class="gmail_default"><i><font size="1"> energy cutoff -0.5</font></i></div><div class="gmail_default"><i><font size="1"> minimum helix length 3</font></i></div><div class="gmail_default"><i><font size="1"> minimum strand length 3</font></i></div><div class="gmail_default"><i><font size="1">Use command 'help ksdssp' for more information.</font></i></div><div class="gmail_default"><i><font size="1">seq (len 437): added</font></i></div><div class="gmail_default"><i><font size="1">target (len 437): model1.pdb (#0) chain A</font></i></div><div class="gmail_default"><i><font size="1">seq (len 437): model1.pdb (#0) chain A</font></i></div><div class="gmail_default"><i><font size="1">target (len 437): added</font></i></div><div class="gmail_default"><i><font size="1">Target seq: added</font></i></div><div class="gmail_default"><i><font size="1">Template structures: </font></i></div><div class="gmail_default"><i><font size="1"><span style="white-space:pre"> </span>model1.pdb (#0)</font></i></div><div class="gmail_default"><i><font size="1">Run locally, the Modeller binary location: /usr/bin/mod9.19</font></i></div><div class="gmail_default"><i><font size="1">Now, modeller is running locally...</font></i></div><div class="gmail_default"><i><font size="1">Wrote /tmp/tmp73g3JY/template_struc/model1.pdb_0_0.pdb</font></i></div><div class="gmail_default"><i><font size="1">MODELLER process output</font></i></div><div class="gmail_default"><i><font size="1">-----------------------</font></i></div><div class="gmail_default"><i><font size="1">-----------------------</font></i></div><div class="gmail_default"><i><font size="1">MODELLER process errors</font></i></div><div class="gmail_default"><i><font size="1">-----------------------</font></i></div><div class="gmail_default"><i><font size="1">Could not find platform independent libraries <prefix></font></i></div><div class="gmail_default"><i><font size="1">Could not find platform dependent libraries <exec_prefix></font></i></div><div class="gmail_default"><i><font size="1">Consider setting $PYTHONHOME to <prefix>[:<exec_prefix>]</font></i></div><div class="gmail_default"><i><font size="1">'import site' failed; use -v for traceback</font></i></div></div><div class="gmail_default" style="font-size:small"><i><br></i></div>The problem seems to be that Chimera can not load the models obtained<div class="gmail_default" style="font-size:small;display:inline">. I</div> can find <div class="gmail_default" style="font-size:small;display:inline">the model</div> inside the directory: /tmp/tmp73g3JY/template_struc/<b>model1.pdb_0_0.pdb</b><div class="gmail_default"><br></div><div class="gmail_default" style="font-size:small">Thank you in advance.</div><div class="gmail_default" style="font-size:small"><br></div><div class="gmail_default" style="font-size:small">Sergio</div><div><br></div>-- <br><div class="gmail_signature"><div dir="ltr"><div><font color="#0000ff" size="1"><i>Sergio Garay<br>Dr. en Ciencias Biológicas<br>Facultad de Bioquimica y Cs. Biológicas<br>Universidad Nacional del Litoral<br>Santa Fe - Argentina<br>C.C. 242 - Ciudad Universitaria - C.P. S3000ZAA<br>Argentina<br>Ph. +54 (342) 4575-213<br>Fax. +54 (342) 4575-221 </i></font></div></div></div>
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