<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Dear Elaine and Tom,<div class=""><br class=""></div><div class="">Thank you both for the instruction over this, both methods are perfect for what I wanted to try!! I’ll get on with it then.</div><div class=""><br class=""></div><div class="">Confirming the python script works for me with the latest version.</div><div class=""><br class=""></div><div class="">Awesome.</div><div class=""><br class=""></div><div class="">Kyle</div><div class=""><br class=""><div><blockquote type="cite" class=""><div class="">On 19 Jan 2017, at 15:05, Tom Goddard <<a href="mailto:goddard@sonic.net" class="">goddard@sonic.net</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><meta http-equiv="Content-Type" content="text/html charset=us-ascii" class=""><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Hi Kyle,<div class=""><br class=""></div><div class=""> Here is the fixed script avalnogui.py to report density map values at atom positions. It is also at the Chimera Python scripts web page.</div><div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span><a href="https://plato.cgl.ucsf.edu/trac/chimera/wiki/Scripts" class="">https://plato.cgl.ucsf.edu/trac/chimera/wiki/Scripts</a></div><div class=""><br class=""></div><div class="">I made it take the file paths on the command line, for instance, </div><div class=""><br class=""></div><div class=""><div class="">$ chimera --nogui --silent --script "avalnogui.py 1a0m.pdb 1a0m.omap"</div><div class="">#1:1.A@N 3.722</div><div class="">#1:1.A@CA 3.345</div><div class="">#1:1.A@C 4.04</div></div><div class="">...</div><div class=""><br class=""></div><div class=""><br class=""></div><div class=""> Tom</div><div class=""><br class=""></div><div class=""></div></div><span id="cid:F7AB051F-01C2-4D00-B4F7-1F8F50619A10@berkeley.edu"><avalnogui.py></span><meta http-equiv="Content-Type" content="text/html charset=utf-8" class=""><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class=""></div><div class=""><br class=""></div><div class=""><br class=""><div class=""><blockquote type="cite" class=""><div class="">On Jan 18, 2017, at 7:36 PM, Kyle Morris <<a href="mailto:kylelmorris@berkeley.edu" class="">kylelmorris@berkeley.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div class="">Dear chimera dev and users,<br class=""><br class="">Can anyone confirm with the latest chimera version (i’m running v1.11.2 build 41376) if this python script for measuring map values at atoms works for them?<br class=""><br class="">The script was reported previously on the users list here: <a href="http://plato.cgl.ucsf.edu/pipermail/chimera-users/2007-May/001587.html" class="">http://plato.cgl.ucsf.edu/pipermail/chimera-users/2007-May/001587.html</a><br class=""><br class="">For me I get a python import error:<br class=""> from VolumeViewer import Data_Region, full_region, Rendering_Options<br class=""><br class="">Thanks for your insight!<br class=""><br class="">Best wishes,<br class="">Kyle<br class="">_______________________________________________<br class="">Chimera-users mailing list: <a href="mailto:Chimera-users@cgl.ucsf.edu" class="">Chimera-users@cgl.ucsf.edu</a><br class="">Manage subscription: <a href="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users" class="">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users</a><br class=""><br class=""></div></div></blockquote></div><br class=""></div></div></div></blockquote></div><br class=""></div></body></html>