<html><head><meta http-equiv="Content-Type" content="text/html charset=us-ascii"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">I should say that this assumes you've already superimposed the atoms with <i>e.g.</i> the "match" command.<div><br></div><div>--Eric</div><div><br><div><div>On May 5, 2014, at 4:10 PM, Eric Pettersen <<a href="mailto:pett@cgl.ucsf.EDU">pett@cgl.ucsf.EDU</a>> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><meta http-equiv="Content-Type" content="text/html charset=us-ascii"><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div><div>On May 5, 2014, at 4:07 PM, chang YG <<a href="mailto:changyg2008@gmail.com">changyg2008@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div dir="ltr">Hi Eric,<div><br></div><div>Thank you very much for the quick response. I can't wait to try the script you provided.</div><div><br></div><div>For the RMSD, I have two conformers for the same sequence. If I encounter any problem, I will give it my best shot before posting questions.</div></div></blockquote><div><br></div>In that case it should be easy:</div><div><br></div><div>from chimera import openModels, Molecule</div><div>m1, m2 = openModels.list(modelTypes=[Molecule])</div><div>import Midas</div><div>rmsd = Midas.rmsd(m1.atoms, m2.atoms)</div><div><i>etc.</i></div><div><i><br></i></div><div>--Eric</div><div><br></div><div><blockquote type="cite"><div dir="ltr">
<div><br></div><div>Yonggang</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On Mon, May 5, 2014 at 3:59 PM, Eric Pettersen <span dir="ltr"><<a href="mailto:pett@cgl.ucsf.edu" target="_blank">pett@cgl.ucsf.edu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word"><div class=""><div><div>On May 5, 2014, at 3:57 PM, Eric Pettersen <<a href="mailto:pett@cgl.ucsf.edu" target="_blank">pett@cgl.ucsf.edu</a>> wrote:</div>
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print>>f, a1, a2, diet</div></blockquote></div><br></div><div>Stupid auto-correct spelling. "diet" should be "dist".</div><span class="HOEnZb"><font color="#888888"><div><br></div><div>--Eric</div>
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