<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Dear Neks<div class=""><br class=""></div><div class="">thank you Paul for your help on my double mesh question !! </div><div class="">it works perfectly, and I am now testing quantitatively the results against published data. </div><div class=""><br class=""></div><div class="">I am having two issues, one is likely stupid, and the other is likely more complex.</div><div class=""><br class=""></div><div class="">stupid issue: When I try to plot the solution at the lower wall of the channel, it appears to be undefined. Is this normal / is there a way to access the solution at the lower wall of the channel ? (The velocity should vanish as I have no slip boundary conditions, but the scalar should not vanish as I have no-flux for the scalar.)</div><div class=""><br class=""></div><div class="">complicatd issue: </div><div class="">the flow starts from 0, it is forced by an average pressure gradients, has laminar initial condition+30% random fluctuations and it converges nicely. </div><div class="">after the turbulent flow becomes stationary, i introduce the scalar, which develops in a nice fluctuating plume, looking reasonable. however, after some times, for no apparent reason, the scalar blows up. it sometimes produces NaN, and sometimes it doesnt. Can anyone think a reason why this happens? Reynolds = Peclet, and the scalar is injected at the inlet through the boundary condition. It does <b class="">not</b> blow up upon reaching the outlet (where I have outflow BC). I tried moving the source and making it bigger and model it as a Gaussian instead of a step function to avoid Gibbs oscillations. I also tried changing the boundary conditions from no flux to absorption (following <span style="font-family: Menlo; font-size: 11px;" class=""><a href="https://lists.mcs.anl.gov/mailman/htdig/nek5000-users/2014-July/002961.html" class="">https://lists.mcs.anl.gov/mailman/htdig/nek5000-users/2014-July/002961.html</a></span>). I also halved diffusivity, so Pe = 1/2 Re, but no luck.</div><div class=""><br class=""></div><div class="">is there any reason why the scalar should be more resolved than the flow ?</div><div class="">is there any known numerical issue that i’m ignoring ?</div><div class=""><br class=""></div><div class="">any hint would be fantastic.</div><div class=""><br class=""></div><div class="">thanks a bunch !</div><div class="">Agnese</div><div class=""><br class=""></div><div><blockquote type="cite" class=""><div class="">On Jan 21, 2017, at 7:00 PM, <a href="mailto:nek5000-users-request@lists.mcs.anl.gov" class="">nek5000-users-request@lists.mcs.anl.gov</a> wrote:</div><br class="Apple-interchange-newline"><div class=""><span style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; 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line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; float: none; display: inline !important;" class=""> 1. Re: double mesh ? (</span><a href="mailto:nek5000-users@lists.mcs.anl.gov" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class="">nek5000-users@lists.mcs.anl.gov</a><span style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; float: none; display: inline !important;" class="">)</span><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><div style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; margin: 0px;" class=""><span style="font-family: -webkit-system-font, 'Helvetica Neue', Helvetica, sans-serif; color: rgb(127, 127, 127);" class=""><b class="">From:<span class="Apple-converted-space"> </span></b></span><span style="font-family: -webkit-system-font, 'Helvetica Neue', Helvetica, sans-serif;" class=""><a href="mailto:nek5000-users@lists.mcs.anl.gov" class="">nek5000-users@lists.mcs.anl.gov</a><br class=""></span></div><div style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; margin: 0px;" class=""><span style="font-family: -webkit-system-font, 'Helvetica Neue', Helvetica, sans-serif; color: rgb(127, 127, 127);" class=""><b class="">Subject:<span class="Apple-converted-space"> </span></b></span><span style="font-family: -webkit-system-font, 'Helvetica Neue', Helvetica, sans-serif;" class=""><b class="">Re: [Nek5000-users] double mesh ?</b><br class=""></span></div><div style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; margin: 0px;" class=""><span style="font-family: -webkit-system-font, 'Helvetica Neue', Helvetica, sans-serif; color: rgb(127, 127, 127);" class=""><b class="">Date:<span class="Apple-converted-space"> </span></b></span><span style="font-family: -webkit-system-font, 'Helvetica Neue', Helvetica, sans-serif;" class="">January 21, 2017 at 1:18:41 PM GMT+1<br class=""></span></div><div style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; margin: 0px;" class=""><span style="font-family: -webkit-system-font, 'Helvetica Neue', Helvetica, sans-serif; color: rgb(127, 127, 127);" class=""><b class="">To:<span class="Apple-converted-space"> </span></b></span><span style="font-family: -webkit-system-font, 'Helvetica Neue', Helvetica, sans-serif;" class="">"<a href="mailto:nek5000-users@lists.mcs.anl.gov" class="">nek5000-users@lists.mcs.anl.gov</a>" <<a href="mailto:nek5000-users@lists.mcs.anl.gov" class="">nek5000-users@lists.mcs.anl.gov</a>><br class=""></span></div><div style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; margin: 0px;" class=""><span style="font-family: -webkit-system-font, 'Helvetica Neue', Helvetica, sans-serif; color: rgb(127, 127, 127);" class=""><b class="">Reply-To:<span class="Apple-converted-space"> </span></b></span><span style="font-family: -webkit-system-font, 'Helvetica Neue', Helvetica, sans-serif;" class=""><a href="mailto:nek5000-users@lists.mcs.anl.gov" class="">nek5000-users@lists.mcs.anl.gov</a><br class=""></span></div><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><div style="font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; direction: ltr; font-family: Tahoma; font-size: 10pt;" class=""><div class="">Dear Agnese,</div><div class=""><br class=""></div>Attached is an example that shows how to modify the connectivity for the thermal<div class="">field to be inflow/outflow.</div><div class=""><br class=""></div><div class="">If your domain is generated with genbox and your flow is in the x direction then</div><div class="">this should also work for 3D.</div><div class=""><br class=""></div><div class="">Note that no changes are required to the .rea file (you should have "P " for both</div><div class="">velocity and temperature in the .rea/.box file).</div><div class=""><br class=""></div><div class="">The changes occur in the .usr file.</div><div class=""><br class=""></div><div class="">Paul</div><div class=""><br class=""><div style="font-family: 'Times New Roman'; font-size: 16px;" class=""><hr tabindex="-1" class=""><div id="divRpF648525" style="direction: ltr;" class=""><font face="Tahoma" size="2" class=""><b class="">From:</b><span class="Apple-converted-space"> </span><a href="mailto:nek5000-users-bounces@lists.mcs.anl.gov" class="">nek5000-users-bounces@lists.mcs.anl.gov</a><span class="Apple-converted-space"> </span>[<a href="mailto:nek5000-users-bounces@lists.mcs.anl.gov" class="">nek5000-users-bounces@lists.mcs.anl.gov</a>] on behalf of<span class="Apple-converted-space"> </span><a href="mailto:nek5000-users@lists.mcs.anl.gov" class="">nek5000-users@lists.mcs.anl.gov</a><span class="Apple-converted-space"> </span>[<a href="mailto:nek5000-users@lists.mcs.anl.gov" class="">nek5000-users@lists.mcs.anl.gov</a>]<br class=""><b class="">Sent:</b><span class="Apple-converted-space"> </span>Monday, January 16, 2017 9:31 AM<br class=""><b class="">To:</b><span class="Apple-converted-space"> </span><a href="mailto:nek5000-users@lists.mcs.anl.gov" class="">nek5000-users@lists.mcs.anl.gov</a><br class=""><b class="">Subject:</b><span class="Apple-converted-space"> </span>Re: [Nek5000-users] double mesh ?<br class=""></font><br class=""></div><div class=""></div><div class=""><div class="">Dear Paul </div><div class=""><br class=""></div><div class="">thank you so much for your help !</div><div class="">I am looking forward to see your example, it will be of great help !</div><div class=""><br class=""></div><div class="">could you tell me something more about the recycling BC as well ?</div><div class=""><br class=""></div><div class="">Thank you again for your help </div><div class="">Agnese</div><div class=""><br class=""></div><div class=""><blockquote type="cite" class=""><div class=""><br class="" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px;"><div class="" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; margin: 0px;"><span class="" style="color: rgb(127, 127, 127);"><b class="">From:<span class="Apple-converted-space"> </span></b></span><span class=""><a href="mailto:nek5000-users@lists.mcs.anl.gov" class="" target="_blank">nek5000-users@lists.mcs.anl.gov</a><br class=""></span></div><div class="" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; margin: 0px;"><span class="" style="color: rgb(127, 127, 127);"><b class="">Subject:<span class="Apple-converted-space"> </span></b></span><span class=""><b class="">Re: [Nek5000-users] double mesh ?</b><br class=""></span></div><div class="" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; margin: 0px;"><span class="" style="color: rgb(127, 127, 127);"><b class="">Date:<span class="Apple-converted-space"> </span></b></span><span class="">January 16, 2017 at 4:05:21 PM GMT+1<br class=""></span></div><div class="" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; margin: 0px;"><span class="" style="color: rgb(127, 127, 127);"><b class="">To:<span class="Apple-converted-space"> </span></b></span><span class="">"<a href="mailto:nek5000-users@lists.mcs.anl.gov" class="" target="_blank">nek5000-users@lists.mcs.anl.gov</a>" <<a href="mailto:nek5000-users@lists.mcs.anl.gov" class="" target="_blank">nek5000-users@lists.mcs.anl.gov</a>><br class=""></span></div><div class="" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; margin: 0px;"><span class="" style="color: rgb(127, 127, 127);"><b class="">Reply-To:<span class="Apple-converted-space"> </span></b></span><span class=""><a href="mailto:nek5000-users@lists.mcs.anl.gov" class="" target="_blank">nek5000-users@lists.mcs.anl.gov</a><br class=""></span></div><br class=""><div class="" style="font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; direction: ltr; font-family: Tahoma; font-size: 10pt;">Dear Agnese,<div class=""><br class=""></div><div class="">Sorry for the long delay in answering this question. The issue is that in fact it is possible</div><div class="">(and used to be a supported but rarely used feature). The challenge, however, is how to</div><div class="">make it relatively easy in the context of the current setup for a variety of applications.</div><div class=""><br class=""></div><div class="">Nek supports a different gather-scatter handle for each field (velocity, temperature, passive</div><div class="">scalar, etc.)</div><div class=""><br class=""></div><div class="">We have a handle that allows the user access to the connectivity list, which would give</div><div class="">you an opportunity to "disconnect" the periodic faces for the temperature array.</div><div class=""><br class=""></div><div class="">I'll try to code up an example for the case of channel flow with a mesh generated by</div><div class="">genbox and post it shortly.</div><div class=""><br class=""></div><div class="">Incidentally, an alternative approach that we often use for more complex domains</div><div class="">would be to use a recycling boundary condition. I think it would not be as efficient,</div><div class="">however, as periodicity for the case that you propose.</div><div class=""><br class=""></div><div class="">Once again, apologies for the delayed response.</div><div class=""><br class=""></div><div class="">Paul</div><div class=""><br class=""></div><div class=""><div class="" style="font-family: 'Times New Roman'; font-size: 16px;"><hr tabindex="-1" class=""><div id="divRpF470953" class="" style="direction: ltr;"><font face="Tahoma" size="2" class=""><b class="">From:</b><span class="Apple-converted-space"> </span><a href="mailto:nek5000-users-bounces@lists.mcs.anl.gov" class="" target="_blank">nek5000-users-bounces@lists.mcs.anl.gov</a><span class="Apple-converted-space"> </span>[<a href="mailto:nek5000-users-bounces@lists.mcs.anl.gov" class="" target="_blank">nek5000-users-bounces@lists.mcs.anl.gov</a>] on behalf of<span class="Apple-converted-space"> </span><a href="mailto:nek5000-users@lists.mcs.anl.gov" class="" target="_blank">nek5000-users@lists.mcs.anl.gov</a>[<a href="mailto:nek5000-users@lists.mcs.anl.gov" class="" target="_blank">nek5000-users@lists.mcs.anl.gov</a>]<br class=""><b class="">Sent:</b><span class="Apple-converted-space"> </span>Thursday, December 22, 2016 4:38 AM<br class=""><b class="">To:</b><span class="Apple-converted-space"> </span><a href="mailto:nek5000-users@lists.mcs.anl.gov" class="" target="_blank">nek5000-users@lists.mcs.anl.gov</a><br class=""><b class="">Subject:</b><span class="Apple-converted-space"> </span>[Nek5000-users] double mesh ?<br class=""></font><br class=""></div><div class=""></div><div class="">Hi<div class=""><br class=""></div><div class="">i am quite new, so i’m sorry if i’m getting things wrong.</div><div class=""><br class=""></div><div class="">I am trying to simulate a turbulent channel flow, with a passive scalar. </div><div class="">in the streamwise direction, i would like to impose periodic boundary conditions for the flow, and non-periodic for the scalar.</div><div class="">in fact the scalar has a point source near the inlet, and i want to see how that develops downstream. </div><div class=""><br class=""></div><div class="">as far as i understand this is not supported by nek5000, because the last mesh point is identified with the first mesh point when periodic BC are imposed.</div><div class="">correct ?</div><div class=""><br class=""></div><div class="">my question is : could i define two meshes, one for the scalar and one for the velocity ?</div><div class=""><br class=""></div><div class="">thanks a lot for your help !!!</div><div class="">agnese</div><div class=""><br class=""></div><div class=""><br class=""></div><div class=""><div class=""><div class="" style="letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; word-wrap: break-word;"><div class="" style="letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; word-wrap: break-word;"><div class="">Agnese Seminara</div><div class=""><div class="">--------------------------------</div><div class="">CNRS</div><div class="">Laboratoire de physique de la matière condensée</div><div class="">Parc Valrose </div><div class="">avenue J Vallot</div><div class="">06108 Nice, France</div><div class=""><span class="" style="color: rgb(38, 48, 51); font-family: Arial, Helvetica, sans-serif; background-color: rgb(255, 255, 255);">+33 (0) 492 076 775</span></div><div class=""><a href="http://sites.unice.fr/site/aseminara/" class="" target="_blank">http://sites.unice.fr/site/aseminara/</a></div></div></div></div></div><br class=""></div></div></div></div></div><br class="" style="font-family: Helvetica; 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