<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">It turns out that the math that transformed a uniform sphere into an ellipsoid was over-complicated and wrong. That'll teach me to crib code from other programmers in the lab. ;-) Also, I wasn't taking the square root of the eigenvalues like I should have, since the U matrix is in units of length squared.<div><br></div><div>I committed fixes for both problems and if tonight's build works then they'll be in the daily build available tomorrow. Check that the date in the table is at least July 6th. Otherwise the build failed and you'd have to try again the next day.</div><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 Jul 5, 2009, at 11:37 PM, Michael K. Gilson wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div>Hi,<br><br>Chimera and PyMol are showing very different thermal ellipsoid <br>orientations for the same PDB file, and I have reason to believe that <br>the PyMol display is the right one.<br>Here are the first two lines of the PDB file I am reading in:<br><br>Atom 1 O1 CUC 1 3.345 1.613 0.172<br>ANISOU 1 O1 CUC 1 619 156 528 150 43 -6<br>ATOM 2 O2 CUC 1 -1.699 0.125 2.792<br>ANISOU 2 O2 CUC 1 497 355 848 128 -68 204<br><br>I would appreciate help with this because Chimera appears to provide <br>more detailed control of the coloring of the ellipsoids than PyMol does.<br><br>I'll be happy to provide screenshots or other information.<br><br>Regards,<br>Mike<br><br>_______________________________________________<br>Chimera-users mailing list<br><a href="mailto:Chimera-users@cgl.ucsf.edu">Chimera-users@cgl.ucsf.edu</a><br>http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users<br></div></blockquote></div><br></div></body></html>