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Hi Ken,</div>
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<span style="color: rgb(0, 0, 0);">Thanks to your notes, I found the new version of
<a title="https://github.com/jklymak/MITgcmcode/blob/master/code/energy_diagnostics_fill.F" id="LPlnk978019" href="https://github.com/jklymak/MITgcmcode/blob/master/code/energy_diagnostics_fill.F">
energy_diagnostics_fill.F</a> where uPbc, vPbc is depth-integral of </span><span style="color: black; background-color: white;">u'p'</span><span style="color: rgb(0, 0, 0);">. And you also explained all the other terms. I can't wait to read them in details.</span></div>
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Thank you for sharing!</div>
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Cheers</div>
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Sean</div>
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>发件人:</b> MITgcm-support <mitgcm-support-bounces@mitgcm.org> 代表 Hughes, Kenneth <kenneth.hughes@oregonstate.edu><br>
<b>发送时间:</b> 2025年8月10日 23:07<br>
<b>收件人:</b> mitgcm-support@mitgcm.org <mitgcm-support@mitgcm.org><br>
<b>主题:</b> Re: [MITgcm-support] 回复: Question about internal tide energy flux balance</font>
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Hi Sean,</div>
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Below are two links to old notes of mine about Jody's energy diagnostics code. They were only intended to be notes to myself (and they're 8 years old), so they might be a bit terse, but I think they could help answer some of your questions.</div>
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The first link is about intermediate calculations within the fortran code. The second link is about an idealized setup that looks at the magnitudes and behaviors of the various terms.</div>
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https://drive.google.com/file/d/1ixlnFmhKCy0EGrHQ7vKlldwOm_mOGVIa/view?usp=sharing</div>
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https://drive.google.com/file/d/1lT56CS_Fgw_g9ecvrxtv_Tt9LNeb3QlS/view?usp=sharing</div>
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Ken Hughes</div>
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<div id="x_divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" color="#000000" style="font-size:11pt"><b>From:</b> MITgcm-support <mitgcm-support-bounces@mitgcm.org> on behalf of Shiqiang Hu (ENV - Postgraduate Researcher) <Shiqiang.Hu@uea.ac.uk><br>
<b>Sent:</b> Sunday, August 10, 2025 1:49 PM<br>
<b>To:</b> mitgcm-support@mitgcm.org <mitgcm-support@mitgcm.org><br>
<b>Subject:</b> [MITgcm-support] 回复: Question about internal tide energy flux balance</font>
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<p><span style="color:#D73F09">[This email originated from outside of OSU. Use caution with links and attachments.]</span></p>
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Hi Jody,</div>
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I have been reading your reference materials which is useful. Finally I was able to output the energy dignostics in latest version based on your code, but several questions have arisen:</div>
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1, For <b>baroclinic</b> <b>energy</b> equation <img size="3516" height="32" width="274" id="x_x_x_image_0" style="width:274px; height:32px; max-width:753px; min-width:auto; min-height:auto; margin:0px" data-outlook-trace="F:4|T:4" src="cid:592a7939-f6bc-48b9-b311-cb17b6089067"> how
did you calculate the first three terms from dignostics outputs, while it seems the equation used in dignostics code is the
<b>total energy</b> equation? I can only find your github pages cause the link in your paper seems no longer valid. I'm confused that Fbc should be <u'p'>, but the dignostics code use the original velosity
<b>uVel</b> and <b>vVel</b> directly to get uPbc and so on.</div>
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2, For Conversion term, the W is derived from <img size="6154" height="35" width="218" id="x_x_x_image_2" style="width:218px; height:35px; max-width:753px; min-width:auto; min-height:auto; margin:0px" data-outlook-trace="F:4|T:4" src="cid:791c1654-63b9-4bb1-9f91-ec3c854ef76b">in
Kang's 2011 paper. So we don't need the W velosity from the model output? I'm not sure if they are different or my code was wrong.</div>
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Sorry if it’s a lot to explain, but I could really use your help with this. </div>
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Thanks and cheers!</div>
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Sean</div>
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University of East Anglia</div>
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<div id="x_x_divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" color="#000000" style="font-size:11pt"><b>发件人:</b> MITgcm-support <mitgcm-support-bounces@mitgcm.org> 代表 Jody Klymak <jklymak@uvic.ca><br>
<b>发送时间:</b> 2025年7月19日 1:18<br>
<b>收件人:</b> mitgcm-support@mitgcm.org <mitgcm-support@mitgcm.org><br>
<b>主题:</b> Re: [MITgcm-support] Question about internal tide energy flux balance</font>
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<b>Warning:</b> This email is from outside the UEA system. Do not click on links or attachments unless you expect them from the sender and know the content is safe.
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<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt">Hi Sean</span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt"> </span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt">This is probably outdated, but the writeup and the diagnostic may help you with your problem:</span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt"> </span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt"><a href="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/" originalsrc="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/" originalsrc="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/" originalsrc="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/">https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/</a></span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt"> </span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt">in particular <a href="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/energy_diagnostics_fill.F" originalsrc="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/energy_diagnostics_fill.F" originalsrc="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/energy_diagnostics_fill.F" originalsrc="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/energy_diagnostics_fill.F">
https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/energy_diagnostics_fill.F</a></span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt">and </span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt"><a href="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/EnergyDiagnostic.pdf" originalsrc="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/EnergyDiagnostic.pdf" originalsrc="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/EnergyDiagnostic.pdf" originalsrc="https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/EnergyDiagnostic.pdf">https://ocean-physics.seos.uvic.ca/~jklymak/MITgcm/EnergyDiagnostic.pdf</a></span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt"> </span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt">This was used extensively in</span>
<span style="font-size:11.0pt"><a href="https://doi.org/10.1175/2010JPO4396.1" originalsrc="https://doi.org/10.1175/2010JPO4396.1" originalsrc="https://doi.org/10.1175/2010JPO4396.1" originalsrc="https://doi.org/10.1175/2010JPO4396.1" target="_blank">10.1175/2010JPO4396.1</a>
and 10.1175/JPO-D-16-0061.1</span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt"> </span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt">Hopefully that helps, if not, I can probably provide more guidance.
</span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt"> </span></p>
<p class="x_x_x_MsoNormal"><span style="font-size:11.0pt">Cheers Jody</span></p>
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<p class="x_x_x_MsoNormal"><b><span style="font-family:"Calibri",sans-serif; color:black">From:
</span></b><span style="font-family:"Calibri",sans-serif; color:black">MITgcm-support <mitgcm-support-bounces@mitgcm.org> on behalf of "Shiqiang Hu (ENV - Postgraduate Researcher)" <Shiqiang.Hu@uea.ac.uk><br>
<b>Reply-To: </b>"mitgcm-support@mitgcm.org" <mitgcm-support@mitgcm.org><br>
<b>Date: </b>Friday, July 18, 2025 at 9:58 AM<br>
<b>To: </b>"mitgcm-support@mitgcm.org" <mitgcm-support@mitgcm.org><br>
<b>Subject: </b>[MITgcm-support] Question about internal tide energy flux balance</span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black">Hi MITgcm commuity,</span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black"> </span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black">Hope you all well.</span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black"> </span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black">I built an idealized 3D internal tide model based on
<a href="https://github.com/MITgcm/MITgcm/blob/master/verification/internal_wave" originalsrc="https://github.com/MITgcm/MITgcm/blob/master/verification/internal_wave" originalsrc="https://github.com/MITgcm/MITgcm/blob/master/verification/internal_wave" originalsrc="https://github.com/MITgcm/MITgcm/blob/master/verification/internal_wave" title="https://github.com/MITgcm/MITgcm/blob/master/verification/internal_wave">
internal_wave experiment</a> to calculate the energy flux F=<u'p'>(<a href="https://doi.org/10.1175/JTECH1784.1" originalsrc="https://doi.org/10.1175/JTECH1784.1" originalsrc="https://doi.org/10.1175/JTECH1784.1" originalsrc="https://doi.org/10.1175/JTECH1784.1" title="https://doi.org/10.1175/JTECH1784.1">Nash et
al., 2005</a>). Periodic 1-mode internal tides propagate to the right and interact with a simple topography. The model works but I got stuck at the energy flux balance part. Sometimes when I chose a small area within the topography to calculate the net energy
flux across its boundary, the result is positive, which means there are rather dissipation but genaration of enerny. So I wanna ask if someone has experience with this. </span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black">Basically, I use <i>RHOAnoma</i>+<i>rhoConst</i> to get original density
<i>rho</i>, cause the paper gets density anomaly from <i><span style="background:white">rho(z,t)-rho_mean(z),
</span></i><span style="background:white">where<i> rho_mean(z) </i>is the time mean vertical density profile (I guess I could also just use the
<i>Rhoref(z) </i>as the reference profile?). The question is the C-grids, should I calculate these values on T-points or U-V points so the energy could be more balenced? Or maybe some other factors I didn't realize? </span></span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black; background:white">By the way, the non-hydrostatic pressure is quite small, so I ignored it.</span><span style="color:black"></span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black; background:white">Thanks for any suggestions.</span><span style="color:black"></span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black; background:white">Kind regards,</span><span style="color:black"></span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black; background:white">Sean</span><span style="color:black"></span></p>
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<p class="x_x_x_MsoNormal"><span style="color:black">University of East Anglia</span></p>
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