<div>Hi Elaine,</div>
<div>Thanks for your prompt reply. Perhaps, I imagined dotted stick in the image of 2zcp active site in Analysis/Comparison tutorial. I'll just stick to what is available now.</div>
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<div>On the Side View panel, I found extremely faint grey square/lines and now my eyes are trained to find them.</div>
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<div>Regards,</div>
<div>Sundar<br></div>
<div class="gmail_quote">On Sat, Nov 27, 2010 at 3:47 PM, Elaine Meng <span dir="ltr"><<a href="mailto:meng@cgl.ucsf.edu">meng@cgl.ucsf.edu</a>></span> wrote:<br>
<blockquote style="BORDER-LEFT: #ccc 1px solid; MARGIN: 0px 0px 0px 0.8ex; PADDING-LEFT: 1ex" class="gmail_quote">Hi Sundar,<br>Currently there is no dashed or dotted stick option for pseudobonds in the interactive view, sorry. I don't know which tutorial image you mean -- I made the tutorials in the User's Guide and I'm pretty sure they don't have any such images.<br>
<br>I can think of one way to make dotted or dashed stick pseudobonds in a static image from Chimera, but that is with the "neon" command, which is not available on Windows.<br><<a href="http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/neon.html" target="_blank">http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/neon.html</a>><br>
<br>Raytracing with Povray from Chimera will make a static image with solid stick pseudobond even when it is shown as a line in the interactive view, but even if the line is dashed or dotted, the stick is continuous (unfortunately). At least, that's what happened just now when I tried it in recent builds of both version 1.5 and 1.6.<br>
<<a href="http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/raytracing.html" target="_blank">http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/raytracing.html</a>><br><br>I can't answer the Side View part, but it might be a graphics driver issue -- you could try updating your graphics driver.<br>
Regards,<br>Elaine<br>-----<br>Elaine C. Meng, Ph.D.<br>UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab<br>Department of Pharmaceutical Chemistry<br>University of California, San Francisco<br>
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<div class="h5"><br>On Nov 27, 2010, at 8:59 AM, M Sundaramoorthy wrote:<br><br>> I like to show pseudobonds (H-bonds, metal coordinations and distances) as solid dotted or dashed lines.<br>><br>> To draw dashed/dotted line I can choose dashed line style in the Pseduobond attributes panel. But it works only with bond style 'wire' not with 'stick'. It can essentially draws flat lines. How do I show 3D dashed/dotted lines? Some images in the tutorial do have such lines represented as dotted (spheres) lines.<br>
><br>> Another problem I have is that the Side View panel shows the image but does not show the eye (the small square) and the clipping planes (vertical lines). I am using Chimera 1.5rc in Windows Vista.<br>><br>
> Thanks<br>> Sundar<br><br></div></div></blockquote></div><br>