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Thanks, I have attached the results without using any KSPGuess. At low frequency, the iteration steps are quite close to the one with KSPGuess, specifically KSPGuess Object: 1 MPI process type: fischer Model 1, size 200 However, I found at
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<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt">Thanks, I have attached the results without using any KSPGuess. At low frequency, the iteration steps are quite close to the one with KSPGuess, specifically
<br>
<br>
KSPGuess Object: 1 MPI process<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt"> type: fischer<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt"> Model 1, size 200<br>
<br>
However, I found at higher frequency, the # of iteration steps are significant higher than the one with KSPGuess, I have attahced both of the results for your reference.<br>
<br>
Moreover, could I ask why the one without the KSPGuess options can be used for a baseline comparsion? What are we comparing here? How does it relate to the performance issue/bottleneck I found? “</span><b>I have noticed that the time taken by </b><b><span style="font-family:"Courier New"">KSPSolve</span> is<span class="apple-converted-space"> </span></b><b><span lang="EN-US">almost
two times<span class="apple-converted-space"> </span></span>greater than the CPU time for matrix-vector product multiplied by the number of iteration</b><span lang="EN-US" style="font-size:11.0pt">”
<br>
<br>
Thank you!<br>
Yongzhong<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt"><o:p> </o:p></span></p>
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<p class="MsoNormal" style="margin-bottom:12.0pt"><b><span style="color:black">From:
</span></b><span style="color:black">Barry Smith <bsmith@petsc.dev><br>
<b>Date: </b>Thursday, June 13, 2024 at 2:14</span><span style="font-family:"Arial",sans-serif;color:black"> </span><span style="color:black">PM<br>
<b>To: </b>Yongzhong Li <yongzhong.li@mail.utoronto.ca><br>
<b>Cc: </b>petsc-users@mcs.anl.gov <petsc-users@mcs.anl.gov>, petsc-maint@mcs.anl.gov <petsc-maint@mcs.anl.gov>, Piero Triverio <piero.triverio@utoronto.ca><br>
<b>Subject: </b>Re: [petsc-maint] Assistance Needed with PETSc KSPSolve Performance Issue<o:p></o:p></span></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"> Can you please run the same thing without the KSPGuess option(s) for a baseline comparison?<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"> Thanks<o:p></o:p></p>
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<p class="MsoNormal"> Barry<o:p></o:p></p>
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<p class="MsoNormal">On Jun 13, 2024, at 1:27<span style="font-family:"Arial",sans-serif"> </span>PM, Yongzhong Li <yongzhong.li@mail.utoronto.ca> wrote:<o:p></o:p></p>
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<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt">Hi Matt,<br>
<br>
I have rerun the program with the keys you provided. The system output when performing ksp solve and the final petsc log output were stored in a .txt file attached for your reference.<br>
<br>
Thanks!<br>
Yongzhong</span><o:p></o:p></p>
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<p class="MsoNormal" style="margin-bottom:12.0pt"><b>From:<span class="apple-converted-space"> </span></b>Matthew Knepley <<a href="mailto:knepley@gmail.com">knepley@gmail.com</a>><br>
<b>Date:<span class="apple-converted-space"> </span></b>Wednesday, June 12, 2024 at 6:46<span style="font-family:"Arial",sans-serif"> </span>PM<br>
<b>To:<span class="apple-converted-space"> </span></b>Yongzhong Li <<a href="mailto:yongzhong.li@mail.utoronto.ca">yongzhong.li@mail.utoronto.ca</a>><br>
<b>Cc:<span class="apple-converted-space"> </span></b><a href="mailto:petsc-users@mcs.anl.gov">petsc-users@mcs.anl.gov</a><span class="apple-converted-space"> </span><<a href="mailto:petsc-users@mcs.anl.gov">petsc-users@mcs.anl.gov</a>>,<span class="apple-converted-space"> </span><a href="mailto:petsc-maint@mcs.anl.gov">petsc-maint@mcs.anl.gov</a><span class="apple-converted-space"> </span><<a href="mailto:petsc-maint@mcs.anl.gov">petsc-maint@mcs.anl.gov</a>>,
Piero Triverio <<a href="mailto:piero.triverio@utoronto.ca">piero.triverio@utoronto.ca</a>><br>
<b>Subject:<span class="apple-converted-space"> </span></b>Re: [petsc-maint] Assistance Needed with PETSc KSPSolve Performance Issue<o:p></o:p></p>
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<span lang="ZH-CN" style="font-size:9.0pt;font-family:DengXian;color:#212121">你通常不会收到来自</span><span class="apple-converted-space"><span style="font-size:9.0pt;font-family:"Segoe UI",sans-serif;color:#212121"> </span></span><span style="font-size:9.0pt;font-family:"Segoe UI",sans-serif;color:#212121"><a href="mailto:knepley@gmail.com">knepley@gmail.com</a><span class="apple-converted-space"> </span></span><span lang="ZH-CN" style="font-size:9.0pt;font-family:DengXian;color:#212121">的电子邮件。</span><span style="font-size:9.0pt;font-family:"Segoe UI",sans-serif;color:#212121"><a href="https://urldefense.us/v3/__https://aka.ms/LearnAboutSenderIdentification__;!!G_uCfscf7eWS!djGfJnEhNJROfsMsBJy5u_KoRKbug55xZ64oHKUFnH2cWku_Th1hwt4TDdoMd8pWYVDzJeqJslMNZwpO3y0Et94d31qk-oCEwo4$"><span lang="ZH-CN" style="font-family:DengXian">了解这一点为什么很重要</span></a></span><o:p></o:p></p>
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<p class="MsoNormal">On Wed, Jun 12, 2024 at 6:36<span style="font-family:"Arial",sans-serif"> </span>PM Yongzhong Li <<a href="mailto:yongzhong.li@mail.utoronto.ca">yongzhong.li@mail.utoronto.ca</a>> wrote:<o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:1.0pt;color:white">Dear PETSc’s developers, I hope this email finds you well. I am currently working on a project using PETSc and have encountered a performance issue with the KSPSolve function. Specifically, I have
noticed that the time taken by KSPSolve is<span class="apple-converted-space"> </span></span><o:p></o:p></p>
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<p class="MsoNormal">Dear<span class="apple-converted-space"> </span><span lang="EN-US">PETSc’s developers</span>,<o:p></o:p></p>
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<p class="MsoNormal">I am currently working on a project using PETSc and have encountered a performance issue with the <span style="font-family:"Courier New"">KSPSolve</span> function. Specifically,<span class="apple-converted-space"> </span><b>I have noticed
that the time taken by </b><b><span style="font-family:"Courier New"">KSPSolve</span> is<span class="apple-converted-space"> </span></b><b><span lang="EN-US">almost two times<span class="apple-converted-space"> </span></span>greater than the CPU time for matrix-vector
product multiplied by the number of iteration steps</b>.<span class="apple-converted-space"> </span><span lang="EN-US">I use C++ chrono to record CPU time.</span><o:p></o:p></p>
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<p class="MsoNormal">For context, I am using a shell system matrix<span class="apple-converted-space"><span lang="EN-US"> </span></span><span lang="EN-US">A</span>. Despite my efforts to<span class="apple-converted-space"> </span><span lang="EN-US">parallelize</span><span class="apple-converted-space"> </span>the
matrix-vector product<span class="apple-converted-space"><span lang="EN-US"> </span></span><span lang="EN-US">(Ax)</span>, the overall solve time remains higher<span class="apple-converted-space"><span lang="EN-US"> </span></span><span lang="EN-US">than the
matrix vector product per iteration indicates when multiple threads were used</span>. Here are a few details of my setup:<o:p></o:p></p>
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<li class="MsoNormal" style="mso-list:l0 level1 lfo1"><b>Matrix Type</b>: Shell system matrix<o:p></o:p></li><li class="MsoNormal" style="mso-list:l0 level1 lfo1"><b>Preconditioner</b>:<span class="apple-converted-space"> </span><span lang="EN-US">Shell PC</span><o:p></o:p></li><li class="MsoNormal" style="mso-list:l0 level1 lfo1"><b>Parallel Environment</b>:<span class="apple-converted-space"> </span><span lang="EN-US">Using Intel MKL as PETSc’s BLAS/LAPACK library, multithreading is enabled</span><o:p></o:p></li></ul>
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<p class="MsoNormal"><span lang="EN-US">I have considered several potential reasons, such as preconditioner setup, additional solver operations, and the inherent overhead of using a shell system matrix.<span class="apple-converted-space"> </span><b>However,
since KSPSolve is a high-level API, I have been unable to pinpoint the exact cause of the increased solve time.</b></span><o:p></o:p></p>
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<p class="MsoNormal"><span lang="EN-US">Have you observed the same issue?<span class="apple-converted-space"> </span></span>Could you<span class="apple-converted-space"><span lang="EN-US"> </span></span><span lang="EN-US">please<span class="apple-converted-space"> </span></span>provide
some<span class="apple-converted-space"> </span><span lang="EN-US">experience<span class="apple-converted-space"> </span></span>on how to diagnose and address this performance discrepancy? Any insights or recommendations you could offer would be greatly appreciated.<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">For any performance question like this, we need to see the output of your code run with<o:p></o:p></p>
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<p class="MsoNormal"> -ksp_view -ksp_monitor_true_residual -ksp_converged_reason -log_view<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal"> Thanks,<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal"> Matt<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">Thank you for your time and assistance.<o:p></o:p></p>
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<p class="MsoNormal">Best<span class="apple-converted-space"><span lang="EN-US"> </span></span><span lang="EN-US">regards,</span><o:p></o:p></p>
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<p class="MsoNormal"><span lang="EN-US">Yongzhong</span><o:p></o:p></p>
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<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif">-----------------------------------------------------------</span><o:p></o:p></p>
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<p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif">Yongzhong Li</span></b><o:p></o:p></p>
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<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif">PhD student | Electromagnetics Group</span><o:p></o:p></p>
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<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif">Department of Electrical & Computer Engineering</span><o:p></o:p></p>
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<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif">University of Toronto</span><o:p></o:p></p>
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<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif"><a href="https://urldefense.us/v3/__http://www.modelics.org__;!!G_uCfscf7eWS!cuLttMJEcegaqu461Bt4QLsO4fASfLM5vjRbtyNhWJQiInbjgNwkGNdkFE1ebSbFjOUatYB0-jd2yQWMWzqkDFFjwMvNl3ZKAr8$" target="_blank"><span style="color:#0563C1">http://www.modelics.org</span></a></span><o:p></o:p></p>
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<p class="MsoNormal"><span class="gmailsignatureprefix">--</span><span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead.<br>
-- Norbert Wiener<o:p></o:p></p>
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<p class="MsoNormal"><a href="https://urldefense.us/v3/__http://www.cse.buffalo.edu/*knepley/__;fg!!G_uCfscf7eWS!djGfJnEhNJROfsMsBJy5u_KoRKbug55xZ64oHKUFnH2cWku_Th1hwt4TDdoMd8pWYVDzJeqJslMNZwpO3y0Et94d31qkNOuenGA$" target="_blank">https://www.cse.buffalo.edu/~knepley/</a><o:p></o:p></p>
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<p class="MsoNormal"><ksp_petsc_log.txt><o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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