<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;" 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 (I sent this before with a wrong URL that required a password)</div><div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span><a href="http://plato.cgl.ucsf.edu/trac/chimera/wiki/Scripts" class="">http://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></body></html>