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<p class="MsoNormal">Dear Elaine, Eric, Tom, and team, I am happy to see ChimeraX is continuing to move forward!
<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Here is a little request.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">For the figures that I am now making for publications, I have a special interest in showing semitransparent molecular maps together with the corresponding models, with ambient occlusion lighting on. I think ambient occlusion makes this
kind of figure much easier to interpret and more beautiful.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">What I have noticed is ambient occlusion seems to get automatically turned off as soon as a map becomes less than 100% opaque. I always assumed this was due to some kind of rendering difficulty. But then, I noticed that sometimes I can
“trick” an old version of ChimeraX to do exactly what I want! Below is an example. Basically, in ChimeraX 0.6 I can set up everything just the way I want with an opaque map, then turn down the map opacity and get a nice, pretty figure just the way I like
it. But then, as soon as I show/hide anything in the Model Panel, the ambient feature gets turned off!<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I noticed that in the most recent daily build, this “trick” no longer works and I can’t seem to ever get the pretty combination of transparent maps and ambient occlusion lighting that I like.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I sure would like to have this option! I guess there must be some reason it is disabled?
<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Best, Chuck Sindelar<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Opaque map + PDB (ChimX v0.6)<o:p></o:p></p>
<p class="MsoNormal">(pretty but the PDB is obscured)<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><img width="306" height="315" style="width:3.1875in;height:3.2812in" id="Picture_x0020_1" src="cid:image001.png@01D55FF9.D8266CF0"><o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">After adjust to 80% map opacity (ChimX v0.6)<o:p></o:p></p>
<p class="MsoNormal">(pretty!)<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><img width="306" height="315" style="width:3.1875in;height:3.2812in" id="Picture_x0020_3" src="cid:image002.png@01D55FF9.D8266CF0"><o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">After unshow/show PDB model (ChimX v0.6)<o:p></o:p></p>
<p class="MsoNormal">(argh!)<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><img width="306" height="315" style="width:3.1875in;height:3.2812in" id="Picture_x0020_5" src="cid:image003.png@01D55FF9.D8266CF0"><o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
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