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Dear Tom,</div>
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You are AWESOME! Very productive and nice function adding! I’m on the edge of my seat! Stay safe and Have a wonderful weekend!</div>
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Best Regards,<br>
Fengwei</div>
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>From:</b> Tom Goddard <goddard@sonic.net><br>
<b>Sent:</b> Friday, August 14, 2020 14:52<br>
<b>To:</b> Zheng, Fengwei <Fengwei.Zheng@vai.org><br>
<b>Cc:</b> chimera-users <chimera-users@cgl.ucsf.edu>; ChimeraX Users Help <chimerax-users@cgl.ucsf.edu><br>
<b>Subject:</b> Re: [Chimera-users] [External] Re: The command like volume zone in X</font>
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<div class="" style="word-wrap:break-word; line-break:after-white-space">Hi Fengwei,
<div class=""><br class="">
</div>
<div class=""> I added the "wobble" command to ChimeraX today that makes a figure 8 motion. It will be in tonight's ChimeraX builds -- nightly builds are listed at the bottom of the downloads web page.</div>
<div class=""><br class="">
</div>
<div class=""> The wobble command is just a shorthand for the turn command and the turn command now has two new options: wobble that controls speed and is the number of frames for a complete figure 8, and wobbleAspect that controls the amplitude of the bobbing
motion as a fraction of the side to side motion (default 0.3). The wobble command uses a default cycle of 136 frames per second which at 60 frames/second rendering is a little more than 2 seconds per figure 8. The wobble command makes the default amplitude
15 degrees.</div>
<div class=""><br class="">
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<div class=""><span class="x_Apple-tab-span" style="white-space:pre"></span>Tom</div>
<div class=""><br class="">
<div><br class="">
<blockquote type="cite" class="">
<div class="">On Aug 14, 2020, at 9:37 AM, Zheng, Fengwei wrote:</div>
<br class="x_Apple-interchange-newline">
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Dear Elaine,</div>
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Got it, Thank you so much for your kind explanation! Stay safe and Have a great weekend!</div>
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Best,<br class="">
Fengwei</div>
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<font face="Calibri, sans-serif" class="" style="font-size:11pt"><b class="">From:</b><span class="x_Apple-converted-space"> </span>Elaine Meng <br class="">
<b class="">Sent:</b><span class="x_Apple-converted-space"> </span>Friday, August 14, 2020 12:34<br class="">
<b class="">To:</b><span class="x_Apple-converted-space"> </span>Zheng, Fengwei <br class="">
<b class="">Cc:</b><span class="x_Apple-converted-space"> </span><a href="mailto:chimera-users@cgl.ucsf.edu" class="">chimera-users@cgl.ucsf.edu</a><span class="x_Apple-converted-space"> </span><<a href="mailto:chimera-users@cgl.ucsf.edu" class="">chimera-users@cgl.ucsf.edu</a>><br class="">
<b class="">Subject:</b><span class="x_Apple-converted-space"> </span>[External] Re: [Chimera-users] The command like volume zone in X</font>
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<div class="x_PlainText">Hi Fengwei,<br class="">
There is a "vop zone" command in Chimera similar to "volume zone" in ChimeraX. Same function, but the keywords and syntax are different, see<br class="">
<br class="">
<<a href="http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/vop.html#zone" class="">http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/vop.html#zone</a>><br class="">
<br class="">
E.g. something like:<br class="">
<br class="">
vop zone #2 #0:.a 2<br class="">
<br class="">
As for your other question, Chimera has a "precessionTilt" option to the "roll" command, but ChimeraX does not have this option currently. Looking at this kind of motion makes me feel seasick, so I don't use it in my own work.<br class="">
<br class="">
<<a href="http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/roll.html" class="">http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/roll.html</a>><br class="">
<br class="">
I hope this helps,<br class="">
Elaine<br class="">
-----<br class="">
Elaine C. Meng, Ph.D. <span class="x_Apple-converted-space"> </span><br class="">
UCSF Chimera(X) team<br class="">
Department of Pharmaceutical Chemistry<br class="">
University of California, San Francisco<br class="">
<br class="">
> On Aug 14, 2020, at 8:43 AM, Zheng, Fengwei wrote:<br class="">
><span class="x_Apple-converted-space"> </span><br class="">
> Dear Developer,<br class="">
> I am wodering if there is a command of Chimera can achieve the same function like "volume zone" in ChimeraX? I tried the command "vol zone #2 near #0:.a range 2", but the chimera always said "unknow keyword #2"~<br class="">
> Another thing is that I wonder if there is a command of ChimeraX can achieve the same function like "turn z 2 360 precess 20" in Chimera (to achieve the Wobble motion / "wiggle-rock" motion, like nutation in pymol)~<br class="">
> The I tried 1.14, 1.15 and the latest daily built versions of Chimera.<br class="">
> The ChimeraX version I used is 1.0, Many thanks!<br class="">
> Best,<br class="">
> Fengwei<br class="">
<br class="">
CAUTION: This email was sent from outside of the organization (<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>). Do not click links or open attachments unless you recognize the sender and know the content is safe. If you have any questions,
please contact<span class="x_Apple-converted-space"> </span><a href="mailto:ServiceDesk@vai.org" class="">ServiceDesk@vai.org</a><span class="x_Apple-converted-space"> </span><<a href="mailto:servicedesk@vai.org" class="">mailto:servicedesk@vai.org</a>>.<br class="">
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