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On Mon, Aug 5, 2024 at 1: 10 PM Sreeram R Venkat <srvenkat@ utexas. edu> wrote: I have a large dense matrix (size ranging from 5e4 to 1e5) that arises as a result of doing MatComputeOperator() on a MatShell. When the total number of nonzeros
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<div dir="ltr"><div dir="ltr">On Mon, Aug 5, 2024 at 1:10 PM Sreeram R Venkat <<a href="mailto:srvenkat@utexas.edu">srvenkat@utexas.edu</a>> wrote:<br></div><div class="gmail_quote"><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div class="msg123354422322395597">
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I have a large dense matrix (size ranging from 5e4 to 1e5) that arises as a result of doing MatComputeOperator() on a MatShell. When the total number of nonzeros exceeds the 32 bit integer value, I get an error (MPI buffer size too big) when
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<div dir="ltr"><div dir="ltr" class="gmail_signature"><div dir="ltr"><div style="color:rgb(34,34,34)">I have a large dense matrix (size ranging from 5e4 to 1e5) that arises as a result of doing MatComputeOperator() on a MatShell. When the total number of nonzeros exceeds the 32 bit integer value, I get an error (MPI buffer size too big) when trying to do MatView() on this to save to binary. Is there a way I can save this matrix to load again for later use? </div></div></div></div></div></blockquote><div><br></div><div>I think you need to reconfigure with --with-64-bit-indices.</div><div><br></div><div> Thanks,</div><div><br></div><div> Matt</div><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div class="msg123354422322395597"><div dir="ltr"><div dir="ltr" class="gmail_signature"><div dir="ltr"><div style="color:rgb(34,34,34)">The other thing I tried was to save each column as a separate dataset in an hdf5 file. Then, I tried to load this in python, combine them to an np array, and then create/save a dense matrix with petsc4py. I was able to create the dense Mat, but the MatView() once again resulted in an error (out of memory). </div><div style="color:rgb(34,34,34)"><br></div><div style="color:rgb(34,34,34)">Thanks,</div><div style="color:rgb(34,34,34)">Sreeram</div></div></div></div>
</div></blockquote></div><br clear="all"><div><br></div><span class="gmail_signature_prefix">-- </span><br><div dir="ltr" class="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div>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</div><div><br></div><div><a href="https://urldefense.us/v3/__http://www.cse.buffalo.edu/*knepley/__;fg!!G_uCfscf7eWS!ZWJy1vnQRcamRkpD9AvtD6y9h9bvIfbWSTz0DllLxYWq7hwcAytyX_EC7cpuwneyYXURUCUm2lSCptfV0OFZ$" target="_blank">https://www.cse.buffalo.edu/~knepley/</a><br></div></div></div></div></div></div></div></div>