<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Hi Isabelle,<div class=""><br class=""></div><div class=""> The command "volume add" adds the densities of the two maps. So where the overlap you will get higher density. Even if you are showing a surface of each map such that the surfaces do not overlap, the map values extend outside those surfaces and can create the higher densities.</div><div class=""><br class=""></div><div class=""> You can instead use "volume maximum #1,2" which will take the maximum density at each grid point so it will handle overlaps better.</div><div class=""><br class=""></div><div class=""> Using volume maximum worked for me in older ChimeraX 1.1, for example</div><div class=""><br class=""></div><div class="">open 1080 from emdb</div><div class="">open 1080 from emdb</div><div class="">move z 130 model #2 coord #2</div><div class="">volume maximum #1,2</div><div class=""><br class=""></div><div class="">But in the current ChimeraX 1.2.5 it didn't get the combined map bounds right, and instead the resulting map had the bounds of the first map. I have fixed that bug -- the fix will be in tonights daily build.</div><div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>Tom</div><div class=""><br class=""></div><div class=""><br class=""><div><img apple-inline="yes" id="8CBEAF5E-E884-48FE-B84D-FBD939B596A5" width="409" height="388" src="cid:A29AA75F-0A97-4AB0-A614-DACDDBF278E1" class=""><br class=""><blockquote type="cite" class=""><div class="">On Aug 25, 2021, at 5:22 PM, Isabelle Phan via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu" class="">chimerax-users@cgl.ucsf.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><meta http-equiv="Content-Type" content="text/html; charset=utf-8" class=""><div style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div class=""><blockquote type="cite" class=""><br class="Apple-interchange-newline"><div class=""><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class="">"volume add” also fails to preserve the relative orientation.</span></div></blockquote></div><br class=""><div class="">I meant to write: "volume add" fails to preserve the map densities.</div><div class=""><br class=""></div><div class="">Sorry,</div><div class="">I.</div></div>_______________________________________________<br class="">ChimeraX-users mailing list<br class=""><a href="mailto:ChimeraX-users@cgl.ucsf.edu" class="">ChimeraX-users@cgl.ucsf.edu</a><br class="">Manage subscription:<br class="">https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users<br class=""></div></blockquote></div><br class=""></div></body></html>