<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">The sequences are in input order unless you ask for the return value to be a dictionary (with the 'asDict' keyword).<div><br></div><div>--Eric</div><div><br><div apple-content-edited="true"> <span class="Apple-style-span" style="border-collapse: separate; border-spacing: 0px 0px; color: rgb(0, 0, 0); font-family: Helvetica; font-size: 16px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-align: auto; -khtml-text-decorations-in-effect: none; text-indent: 0px; -apple-text-size-adjust: auto; text-transform: none; orphans: 2; white-space: normal; widows: 2; word-spacing: 0px; "><div style="word-wrap: break-word; -khtml-nbsp-mode: space; -khtml-line-break: after-white-space; "><p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Helvetica" size="5" style="font: 16.0px Helvetica"><span class="Apple-converted-space"> <span class="Apple-converted-space"> </span></span>Eric Pettersen</font></p><p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Helvetica" size="5" style="font: 16.0px Helvetica"><span class="Apple-converted-space"> <span class="Apple-converted-space"> </span></span>UCSF Computer Graphics Lab</font></p><p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Helvetica" size="5" style="font: 16.0px Helvetica"><span class="Apple-converted-space"> </span><a href="http://www.cgl.ucsf.edu">http://www.cgl.ucsf.edu</a></font></p></div></span> </div><br><div><div>On Feb 22, 2010, at 11:25 AM, Conrad Huang wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div>There's a comment in Segment.py:<br><br><span class="Apple-tab-span" style="white-space:pre"> </span># Get the chains from each model. If they do not have the<br><span class="Apple-tab-span" style="white-space:pre"> </span># same number of chains, we give up. Otherwise, we assume<br><span class="Apple-tab-span" style="white-space:pre"> </span># that the chains should be matched in the same order<br><br>It uses molecule.sequences() to get the chains. Eric, does sequences() return the chains in input order, or is it random (eg hash order)?<br><br>Conrad<br><br>On 2/22/2010 10:26 AM, Thomas Goddard wrote:<br><blockquote type="cite">Bobby Laird showed me a homo-tetramer with chains A, B, C, D that when<br></blockquote><blockquote type="cite">morphed between two states with the Chimera morph conformations tool<br></blockquote><blockquote type="cite">swapped two of the monomers. In other words the 4 chains from one state<br></blockquote><blockquote type="cite">weren't correctly paired with the 4 chains from the other state so two<br></blockquote><blockquote type="cite">monomers exchanged positions during the morph. The tetramers were built<br></blockquote><blockquote type="cite">from dimers 1pfk and 2pfk by using the symmetry of the unit cell with<br></blockquote><blockquote type="cite">other software (coot?).<br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite">How does morph conformations decide which chains to pair?<br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite">Tom<br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite">_______________________________________________<br></blockquote><blockquote type="cite">Chimera-users mailing list<br></blockquote><blockquote type="cite"><a href="mailto:Chimera-users@cgl.ucsf.edu">Chimera-users@cgl.ucsf.edu</a><br></blockquote><blockquote type="cite"><a href="http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users">http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users</a><br></blockquote><br></div></blockquote></div><br></div></body></html>