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<p class="MsoPlainText">Hi Elaine,<o:p></o:p></p>
<p class="MsoPlainText"><o:p> </o:p></p>
<p class="MsoPlainText">Here's a bit of background: this map is the result of a mapping using H2O as probe done by PLI [1]. I would like to adjust the contour levels to look like the red contour levels in Panel B in the attached figure (figure 4 from [1]).
How can I achieve this, or is this not possible in Chimera?<o:p></o:p></p>
<p class="MsoPlainText"><o:p> </o:p></p>
<p class="MsoPlainText">Thanks<o:p></o:p></p>
<p class="MsoPlainText">Markus<o:p></o:p></p>
<p class="MsoPlainText"><o:p> </o:p></p>
<p class="MsoPlainText">[1] Verdonk et al., J. Med. Chem 2016, 59, 6891--6902; DOI: 10.1021/acs.jmedchem.6b00716<o:p></o:p></p>
<p class="MsoPlainText"><o:p> </o:p></p>
<p class="MsoPlainText"><img width="1383" height="654" style="width:14.4062in;height:6.8125in" id="Picture_x0020_1" src="cid:image001.png@01D3EC48.52B943B0"><o:p></o:p></p>
<p class="MsoPlainText"><o:p> </o:p></p>
<p class="MsoPlainText">> -----Original Message-----</p>
<p class="MsoPlainText">> From: Elaine Meng <meng@cgl.ucsf.edu></p>
<p class="MsoPlainText">> Sent: Tuesday, May 15, 2018 11:06 AM</p>
<p class="MsoPlainText">> To: Markus Heller <mheller@cdrd.ca></p>
<p class="MsoPlainText">> Cc: chimera-users@cgl.ucsf.edu BB <chimera-users@cgl.ucsf.edu></p>
<p class="MsoPlainText">> Subject: Re: [Chimera-users] Volume viewer levels question</p>
<p class="MsoPlainText">> </p>
<p class="MsoPlainText">> Hi Markus,</p>
<p class="MsoPlainText">> The behavior you describe is like entering some value that is higher than what is</p>
<p class="MsoPlainText">> in your map, so there is no contour surface any more. Then when you move the</p>
<p class="MsoPlainText">> slider, it resets to the maximum value found. Not sure why you expect higher</p>
<p class="MsoPlainText">> levels, but maybe whatever program that wrote the file didn’t write bigger values,</p>
<p class="MsoPlainText">> or didn’t write the format correctly.</p>
<p class="MsoPlainText">> I hope this helps,</p>
<p class="MsoPlainText">> Elaine</p>
<p class="MsoPlainText">> -----</p>
<p class="MsoPlainText">> Elaine C. Meng, Ph.D.</p>
<p class="MsoPlainText">> UCSF Chimera(X) team</p>
<p class="MsoPlainText">> Department of Pharmaceutical Chemistry</p>
<p class="MsoPlainText">> University of California, San Francisco</p>
<p class="MsoPlainText">> </p>
<p class="MsoPlainText">> </p>
<p class="MsoPlainText">> > On May 15, 2018, at 10:15 AM, Markus Heller <<a href="mailto:mheller@cdrd.ca"><span style="color:windowtext;text-decoration:none">mheller@cdrd.ca</span></a>> wrote:</p>
<p class="MsoPlainText">> ></p>
<p class="MsoPlainText">> > Hi all,</p>
<p class="MsoPlainText">> ></p>
<p class="MsoPlainText">> > I have an issue displaying a map file that I opened using the insightgrid.py</p>
<p class="MsoPlainText">> script.</p>
<p class="MsoPlainText">> ></p>
<p class="MsoPlainText">> > When displaying the grid at the highest level I can get, the levels are still too</p>
<p class="MsoPlainText">> low, but when I set the levels higher by typing something into the level field (e.g.</p>
<p class="MsoPlainText">> 1.2e+03 instead of the 1e+03), the levels disappear altogether as shown in the</p>
<p class="MsoPlainText">> second screenshot. As soon as I adjust the slider, the levels reset to 1e+03.</p>
<p class="MsoPlainText">> What am I doing wrong?</p>
<p class="MsoPlainText">> ></p>
<p class="MsoPlainText">> > Thanks</p>
<p class="MsoPlainText">> > Markus</p>
<p class="MsoPlainText"><o:p> </o:p></p>
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