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<div class="moz-cite-prefix">On 2019-10-10 4:28 p.m., Matthew
Knepley wrote:<br>
</div>
<blockquote type="cite"
cite="mid:CAMYG4Gn+st-zXv=Ds195W8zvH8FNVkLa_c5V6bXCqh3S=DA1yg@mail.gmail.com">
<meta http-equiv="content-type" content="text/html; charset=UTF-8">
<div dir="ltr">
<div dir="ltr">On Thu, Oct 10, 2019 at 4:26 PM Danyang Su <<a
href="mailto:danyang.su@gmail.com" moz-do-not-send="true">danyang.su@gmail.com</a>>
wrote:<br>
</div>
<div class="gmail_quote">
<blockquote class="gmail_quote" style="margin:0px 0px 0px
0.8ex;border-left:1px solid
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<div bgcolor="#FFFFFF">
<p>Hi All,</p>
<p>Your guess is right. The memory problem occurs after
DMPlexCreateFromCellList and DMPlexDistribute. The mesh
related memory in the master processor is not released
after that. <br>
</p>
<p>The pseudo code I use is <br>
</p>
<p>if (rank == 0) then !only the master processor
read the mesh file and create cell list<br>
</p>
<p> call
DMPlexCreateFromCellList(Petsc_Comm_World,ndim,num_cells,
&<br>
num_nodes,num_nodes_per_cell, &<br>
Petsc_False,dmplex_cells,ndim, & !use Petsc_True
to create intermediate mesh entities (faces, edges),<br>
dmplex_verts,dmda_flow%da,ierr) !not work for prism
for the current 3.8 version.<br>
CHKERRQ(ierr)</p>
<p>else !slave processors
pass zero cells<br>
</p>
<p> call
DMPlexCreateFromCellList(Petsc_Comm_World,ndim,0,0,
&<br>
num_nodes_per_cell, &<br>
Petsc_False,dmplex_cells,ndim, & !use Petsc_True
to create intermediate mesh entities (faces, edges),<br>
dmplex_verts,dmda_flow%da,ierr) !not work for prism
for the current 3.8 version.<br>
CHKERRQ(ierr)<br>
</p>
<p>end if<br>
</p>
<p>call DMPlexDistribute</p>
<p>call DMDestroy(dmda_flow%da,ierr)<br>
CHKERRQ(ierr)</p>
<p>!c set the global mesh as distributed mesh<br>
dmda_flow%da = distributedMesh</p>
<p><br>
</p>
<p>After calling the above functions, the memory usage for
the test case (no. points 953,433, nprocs 160) is shown
below:<br>
rank 0 PETSc memory current MB 1610.39 PETSc memory
maximum MB 1690.42<br>
rank 151 PETSc memory current MB 105.00 PETSc memory
maximum MB 104.94<br>
rank 98 PETSc memory current MB 106.02 PETSc memory
maximum MB 105.95<br>
rank 18 PETSc memory current MB 106.17 PETSc memory
maximum MB 106.17</p>
<p>Is there any function available in the master version
that can release this memory?<br>
</p>
</div>
</blockquote>
<div>DMDestroy() releases this memory, UNLESS you are holding
other objects that refer to it, like a vector from that DM.</div>
</div>
</div>
</blockquote>
<p>Well, I have some labels set before distribution. After
distribution, the labels values are collected but not destroyed. I
will try this to see if it makes big difference.</p>
<p>Thanks,</p>
<p>danyang<br>
</p>
<blockquote type="cite"
cite="mid:CAMYG4Gn+st-zXv=Ds195W8zvH8FNVkLa_c5V6bXCqh3S=DA1yg@mail.gmail.com">
<div dir="ltr">
<div class="gmail_quote">
<div><br>
</div>
<div> Thanks,</div>
<div><br>
</div>
<div> Matt <br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px
0.8ex;border-left:1px solid
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<div bgcolor="#FFFFFF">
<p> </p>
<p>Thanks,</p>
<p>Danyang<br>
</p>
<div>On 2019-10-10 11:09 a.m., Mark Adams via petsc-users
wrote:<br>
</div>
<blockquote type="cite">
<div dir="ltr">Now that I think about it, the
partitioning and distribution can be done with
existing API, I would assume, like is done with
matrices.
<div><br>
</div>
<div>I'm still wondering what the H5 format is. I
assume that it is not built for a hardwired number
of processes to read in parallel and that the
parallel read is somewhat scalable.</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On Thu, Oct 10, 2019
at 12:13 PM Mark Adams <<a
href="mailto:mfadams@lbl.gov" target="_blank"
moz-do-not-send="true">mfadams@lbl.gov</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px
0px 0.8ex;border-left:1px solid
rgb(204,204,204);padding-left:1ex">
<div dir="ltr">A related question, what is the state
of having something like a
distributed DMPlexCreateFromCellList method, but
maybe your H5 efforts would work. My bone modeling
code is old and a pain, but the apps specialized
serial mesh generator could write an H5 file
instead of the current FEAP file. Then you reader,
SNES and a large deformation plasticity element in
PetscFE could replace my code, in the future.
<div><br>
</div>
<div>How does your H5 thing work? Is it basically
a flat file (not partitioned) that is read in in
parallel by slicing the cell lists, etc, using
file seek or something equivalent, then
reconstructing a local graph on each processor
to give to say Parmetis, then completes the
distribution with this reasonable partitioning?
(this is what our current code does)</div>
<div><br>
</div>
<div>Thanks,</div>
<div>Mark</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On Thu, Oct 10,
2019 at 9:30 AM Dave May via petsc-users <<a
href="mailto:petsc-users@mcs.anl.gov"
target="_blank" moz-do-not-send="true">petsc-users@mcs.anl.gov</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px
0px 0px 0.8ex;border-left:1px solid
rgb(204,204,204);padding-left:1ex">
<div><br>
</div>
<div><br>
<div class="gmail_quote">
<div dir="ltr">On Thu 10. Oct 2019 at 15:15,
Matthew Knepley <<a
href="mailto:knepley@gmail.com"
target="_blank" moz-do-not-send="true">knepley@gmail.com</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote"
style="margin:0px 0px 0px
0.8ex;border-left:1px solid
rgb(204,204,204);padding-left:1ex">
<div dir="ltr">
<div dir="ltr">On Thu, Oct 10, 2019 at
9:10 AM Dave May <<a
href="mailto:dave.mayhem23@gmail.com"
target="_blank"
moz-do-not-send="true">dave.mayhem23@gmail.com</a>>
wrote:<br>
</div>
</div>
<div dir="ltr">
<div class="gmail_quote">
<blockquote class="gmail_quote"
style="margin:0px 0px 0px
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<div>On Thu 10. Oct 2019 at 15:04,
Matthew Knepley <<a
href="mailto:knepley@gmail.com"
target="_blank"
moz-do-not-send="true">knepley@gmail.com</a>>
wrote:<br>
</div>
<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 dir="ltr">
<div dir="ltr">On Thu, Oct
10, 2019 at 8:41 AM Dave
May <<a
href="mailto:dave.mayhem23@gmail.com"
target="_blank"
moz-do-not-send="true">dave.mayhem23@gmail.com</a>>
wrote:<br>
</div>
<div class="gmail_quote">
<blockquote
class="gmail_quote"
style="margin:0px 0px
0px
0.8ex;border-left:1px
solid
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<div>
<div>On Thu 10. Oct
2019 at 14:34,
Matthew Knepley <<a
href="mailto:knepley@gmail.com" target="_blank" moz-do-not-send="true">knepley@gmail.com</a>>
wrote:<br>
</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 dir="ltr">
<div dir="ltr">On
Thu, Oct 10,
2019 at 8:31 AM
Dave May <<a
href="mailto:dave.mayhem23@gmail.com" target="_blank"
moz-do-not-send="true">dave.mayhem23@gmail.com</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 dir="ltr">
<div dir="ltr">On
Thu, 10 Oct
2019 at 13:21,
Matthew
Knepley via
petsc-users
<<a
href="mailto:petsc-users@mcs.anl.gov"
target="_blank" moz-do-not-send="true">petsc-users@mcs.anl.gov</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 dir="ltr">
<div dir="ltr">On
Wed, Oct 9,
2019 at 5:10
PM Danyang Su
via
petsc-users
<<a
href="mailto:petsc-users@mcs.anl.gov"
target="_blank" moz-do-not-send="true">petsc-users@mcs.anl.gov</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
bgcolor="#FFFFFF">
<p>Dear All,</p>
<p>I have a
question
regarding the
maximum memory
usage for the
scaling test.
My code is
written in
Fortran with
support for
both
structured
grid (DM) and
unstructured
grid (DMPlex).
It looks like
memory
consumption is
much larger
when DMPlex is
used and
finally causew
out_of_memory
problem. <br>
</p>
<p>Below are
some test
using both
structured
grid and
unstructured
grid. The
memory
consumption by
the code is
estimated
based on all
allocated
arrays and
PETSc memory
consumption is
estimated
based on
PetscMemoryGetMaximumUsage.
<br>
</p>
<p>I just
wonder why the
PETSc memory
consumption
does not
decrease when
number of
processors
increases. For
structured
grid (scenario
7-9), the
memory
consumption
decreases as
number of
processors
increases.
However, for
unstructured
grid case
(scenario
14-16), the
memory for
PETSc part
remains
unchanged.
When I run a
larger case,
the code
crashes
because memory
is ran out.
The same case
works on
another
cluster with
480GB memory
per node. Does
this make
sense?<br>
</p>
</div>
</blockquote>
<div>We would
need a finer
breakdown of
where memory
is being used.
I did this for
a paper:</div>
<div><br>
</div>
<div> <a
href="https://agupubs.onlinelibrary.wiley.com/doi/full/10.1002/jgrb.50217"
target="_blank" moz-do-not-send="true">https://agupubs.onlinelibrary.wiley.com/doi/full/10.1002/jgrb.50217</a></div>
<div><br>
</div>
<div>If the
subdomains,
the halo sizes
can overwhelm
the basic
storage. It
looks like the
subdomains are
big here,</div>
<div>but
things are not
totally clear
to me. It
would be
helpful to
send the
output of
-log_view for
each case
since</div>
<div>PETSc
tries to keep
track of
allocated
memory. </div>
</div>
</div>
</blockquote>
<div><br>
</div>
<div>Matt -
I'd guess that
there is a
sequential
(non-partitioned)
mesh hanging
around in
memory.</div>
<div>Is it
possible that
he's created
the PLEX
object which
is loaded
sequentially
(stored and
retained in
memory and
never
released), and
then
afterwards
distributed?</div>
<div>This can
never happen
with the DMDA
and the table
verifies this.</div>
<div>If his
code using the
DMDA and
DMPLEX are as
identical as
possible
(albeit the DM
used), then a
sequential
mesh held in
memory seems
the likely
cause.</div>
</div>
</div>
</blockquote>
<div><br>
</div>
<div>Dang it,
Dave is always
right.</div>
<div><br>
</div>
<div>How to
prevent this?
</div>
</div>
</div>
</blockquote>
<div dir="auto"><br>
</div>
</div>
<div>
<div dir="auto">I
thought
you/Lawrence/Vaclav/others...
had developed and
provided support
for a parallel
DMPLEX load via a
suitably defined
plex specific H5
mesh file.</div>
</div>
</blockquote>
<div><br>
</div>
<div>We have, but these
tests looked like
generated meshes.</div>
</div>
</div>
</blockquote>
<div dir="auto"><br>
</div>
<div dir="auto">Great. </div>
<div dir="auto"><br>
</div>
<div dir="auto">So would a
solution to the problem be to
have the user modify their
code in the follow way:</div>
<div dir="auto">* they move the
mesh gen stage into a seperate
exec which they call offline
(on a fat node with lots of
memory), and dump the
appropriate file</div>
<div dir="auto">* they change
their existing application to
simply load that file in
parallel.</div>
</div>
</div>
</blockquote>
<div><br>
</div>
</div>
</div>
<div dir="ltr">
<div class="gmail_quote">
<div>Yes.</div>
<div> </div>
<blockquote class="gmail_quote"
style="margin:0px 0px 0px
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<div>
<div class="gmail_quote">
<div dir="auto">If there were
examples illustrating how to
create the file which can be
loaded in parallel I think it
would be very helpful for the
user (and many others)</div>
</div>
</div>
</blockquote>
<div><br>
</div>
<div>I think Vaclav is going to add
his examples as soon as we fix this
parallel interpolation bug. I am
praying for time in the latter</div>
<div>part of October to do this.</div>
</div>
</div>
</blockquote>
<div dir="auto"><br>
</div>
<div dir="auto"><br>
</div>
<div dir="auto">Excellent news - thanks for
the update and info.</div>
<div dir="auto"><br>
</div>
<div dir="auto">Cheers</div>
<div dir="auto">Dave</div>
<div dir="auto"><br>
</div>
<div dir="auto"><br>
</div>
<blockquote class="gmail_quote"
style="margin:0px 0px 0px
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<div class="gmail_quote">
<div><br>
</div>
<div> Thanks,</div>
<div><br>
</div>
<div> Matt</div>
</div>
</div>
<div dir="ltr">
<div class="gmail_quote">
<div> </div>
<blockquote class="gmail_quote"
style="margin:0px 0px 0px
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<div>
<div class="gmail_quote">
<div dir="auto">Cheers</div>
<div dir="auto">Dave</div>
<div dir="auto"><br>
</div>
<blockquote class="gmail_quote"
style="margin:0px 0px 0px
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<div dir="ltr">
<div class="gmail_quote">
<div><br>
</div>
<div> Thanks,</div>
<div><br>
</div>
<div> Matt</div>
</div>
</div>
<div dir="ltr">
<div class="gmail_quote">
<div> </div>
<blockquote
class="gmail_quote"
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<div>
<div>
<div
class="gmail_quote">
<blockquote
class="gmail_quote"
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<div dir="ltr">
<div
class="gmail_quote">
<div>Since it
looks like you
are okay with
fairly regular
meshes, I
would
construct the</div>
<div>coarsest
mesh you can,
and then use</div>
<div><br>
</div>
<div>
-dm_refine
<k></div>
<div><br>
</div>
<div>which is
activated by
DMSetFromOptions().
Make sure to
call it after
DMPlexDistribute(). It will regularly</div>
<div>refine in
parallel and
should show
good memory
scaling as
Dave says.</div>
<div><br>
</div>
<div> Thanks,</div>
<div><br>
</div>
<div>
Matt </div>
</div>
</div>
<div dir="ltr">
<div
class="gmail_quote">
<div> </div>
<blockquote
class="gmail_quote"
style="margin:0px 0px 0px 0.8ex;border-left:1px solid
rgb(204,204,204);padding-left:1ex">
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<div
class="gmail_quote">
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class="gmail_quote"
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<div dir="ltr">
<div
class="gmail_quote">
<div><br>
</div>
<div> Thanks,</div>
<div><br>
</div>
<div> Matt</div>
<blockquote
class="gmail_quote"
style="margin:0px 0px 0px 0.8ex;border-left:1px solid
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<div
bgcolor="#FFFFFF">
<p> </p>
<p> </p>
<table
cellspacing="0"
border="0">
<colgroup
width="85"
span="5"></colgroup>
<colgroup
width="83"></colgroup>
<colgroup
width="125"></colgroup>
<colgroup
width="211"></colgroup>
<colgroup
width="125"></colgroup>
<colgroup
width="175"></colgroup>
<colgroup
width="119"></colgroup>
<tbody>
<tr>
<td
height="17"
align="right">scenario</td>
<td
align="right">no.
points</td>
<td
align="right">cell
type</td>
<td
align="right">DMPLex</td>
<td
align="right">nprocs</td>
<td
align="right">no.
nodes</td>
<td
align="right">mem
per node GB</td>
<td
align="right">solver</td>
<td
align="right">Rank
0 memory MB</td>
<td
align="right">Rank
0 petsc memory
MB</td>
<td
align="right">Runtime
(sec)</td>
</tr>
<tr>
<td
height="17"
align="right">1</td>
<td
align="right">2121</td>
<td
align="right">rectangle</td>
<td
align="right">no</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">0.21</td>
<td
align="right">41.6</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">2</td>
<td
align="right">8241</td>
<td
align="right">rectangle</td>
<td
align="right">no</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">0.59</td>
<td
align="right">51.84</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">3</td>
<td
align="right">32481</td>
<td
align="right">rectangle</td>
<td
align="right">no</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">1.95</td>
<td
align="right">59.1</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">4</td>
<td
align="right">128961</td>
<td
align="right">rectangle</td>
<td
align="right">no</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">7.05</td>
<td
align="right">89.71</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">5</td>
<td
align="right">513921</td>
<td
align="right">rectangle</td>
<td
align="right">no</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">26.76</td>
<td
align="right">110.58</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">6</td>
<td
align="right">2051841</td>
<td
align="right">rectangle</td>
<td
align="right">no</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">104.21</td>
<td
align="right">232.05</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right"><b>7</b></td>
<td
align="right"><b>8199681</b></td>
<td
align="right"><b>rectangle</b></td>
<td
align="right"><b>no</b></td>
<td
align="right"><b>40</b></td>
<td
align="right"><b>1</b></td>
<td
align="right"><b>200</b></td>
<td
align="right"><b>GMRES,Hypre
preconditioner</b></td>
<td
align="right"><b>411.26</b></td>
<td
align="right"><b>703.27</b></td>
<td
align="right"><b>140.29</b></td>
</tr>
<tr>
<td
height="17"
align="right"><b>8</b></td>
<td
align="right"><b>8199681</b></td>
<td
align="right"><b>rectangle</b></td>
<td
align="right"><b>no</b></td>
<td
align="right"><b>80</b></td>
<td
align="right"><b>2</b></td>
<td
align="right"><b>200</b></td>
<td
align="right"><b>GMRES,Hypre
preconditioner</b></td>
<td
align="right"><b>206.6</b></td>
<td
align="right"><b>387.25</b></td>
<td
align="right"><b>62.04</b></td>
</tr>
<tr>
<td
height="17"
align="right"><b>9</b></td>
<td
align="right"><b>8199681</b></td>
<td
align="right"><b>rectangle</b></td>
<td
align="right"><b>no</b></td>
<td
align="right"><b>160</b></td>
<td
align="right"><b>4</b></td>
<td
align="right"><b>200</b></td>
<td
align="right"><b>GMRES,Hypre
preconditioner</b></td>
<td
align="right"><b>104.28</b></td>
<td
align="right"><b>245.3</b></td>
<td
align="right"><b>32.76</b></td>
</tr>
<tr>
<td
height="17"
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">10</td>
<td
align="right">2121</td>
<td
align="right">triangle</td>
<td
align="right">yes</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">0.49</td>
<td
align="right">61.78</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">11</td>
<td
align="right">15090</td>
<td
align="right">triangle</td>
<td
align="right">yes</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">2.32</td>
<td
align="right">96.61</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">12</td>
<td
align="right">59847</td>
<td
align="right">triangle</td>
<td
align="right">yes</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">8.28</td>
<td
align="right">176.14</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">13</td>
<td
align="right">238568</td>
<td
align="right">triangle</td>
<td
align="right">yes</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">31.89</td>
<td
align="right">573.73</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right"><b>14</b></td>
<td
align="right"><b>953433</b></td>
<td
align="right"><b>triangle</b></td>
<td
align="right"><b>yes</b></td>
<td
align="right"><b>40</b></td>
<td
align="right"><b>1</b></td>
<td
align="right"><b>200</b></td>
<td
align="right"><b>GMRES,Hypre
preconditioner</b></td>
<td
align="right"><b>119.23</b></td>
<td
align="right"><b>2102.54</b></td>
<td
align="right"><b>44.11</b></td>
</tr>
<tr>
<td
height="17"
align="right"><b>15</b></td>
<td
align="right"><b>953433</b></td>
<td
align="right"><b>triangle</b></td>
<td
align="right"><b>yes</b></td>
<td
align="right"><b>80</b></td>
<td
align="right"><b>2</b></td>
<td
align="right"><b>200</b></td>
<td
align="right"><b>GMRES,Hypre
preconditioner</b></td>
<td
align="right"><b>72.99</b></td>
<td
align="right"><b>2123.8</b></td>
<td
align="right"><b>24.36</b></td>
</tr>
<tr>
<td
height="17"
align="right"><b>16</b></td>
<td
align="right"><b>953433</b></td>
<td
align="right"><b>triangle</b></td>
<td
align="right"><b>yes</b></td>
<td
align="right"><b>160</b></td>
<td
align="right"><b>4</b></td>
<td
align="right"><b>200</b></td>
<td
align="right"><b>GMRES,Hypre
preconditioner</b></td>
<td
align="right"><b>48.65</b></td>
<td
align="right"><b>2076.25</b></td>
<td
align="right"><b>14.87</b></td>
</tr>
<tr>
<td
height="17"
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">17</td>
<td
align="right">55770</td>
<td
align="right">prism</td>
<td
align="right">yes</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">18.46</td>
<td
align="right">219.39</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">18</td>
<td
align="right">749814</td>
<td
align="right">prism</td>
<td
align="right">yes</td>
<td
align="right">40</td>
<td
align="right">1</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right">149.86</td>
<td
align="right">2412.39</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right">19</td>
<td
align="right">7000050</td>
<td
align="right">prism</td>
<td
align="right">yes</td>
<td
align="right">40
to 640</td>
<td
align="right">1
to 16</td>
<td
align="right">200</td>
<td
align="right">GMRES,Hypre
preconditioner</td>
<td
align="right"><br>
</td>
<td
align="right">out_of_memory</td>
<td
align="left"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
<td
align="right"><br>
</td>
</tr>
<tr>
<td
height="17"
align="right"><b>20</b></td>
<td
align="right"><b>7000050</b></td>
<td
align="right"><b>prism</b></td>
<td
align="right"><b>yes</b></td>
<td
align="right"><b>64</b></td>
<td
align="right"><b>2</b></td>
<td
align="right"><b>480</b></td>
<td
align="right"><b>GMRES,Hypre
preconditioner</b></td>
<td
align="right"><b>890.92</b></td>
<td
align="right"><b>17214.41</b></td>
<td
align="right"><br>
</td>
</tr>
</tbody>
</table>
<p> </p>
<p>The error
information of
scenario 19 is
shown below:<br>
</p>
<p>kernel
messages
produced
during job
executions:<br>
[Oct 9 10:41]
mpiexec.hydra
invoked
oom-killer:
gfp_mask=0x200da,
order=0,
oom_score_adj=0<br>
[ +0.010274]
mpiexec.hydra
cpuset=/
mems_allowed=0-1<br>
[ +0.006680]
CPU: 2 PID:
144904 Comm:
mpiexec.hydra
Tainted:
G
OE
------------
3.10.0-862.14.4.el7.x86_64 #1<br>
[ +0.013365]
Hardware name:
Lenovo
ThinkSystem
SD530
-[7X21CTO1WW]-/-[7X21CTO1WW]-,
BIOS
-[TEE124N-1.40]-
06/12/2018<br>
[ +0.012866]
Call Trace:<br>
[ +0.003945]
[<ffffffffb3313754>] dump_stack+0x19/0x1b<br>
[ +0.006995]
[<ffffffffb330e91f>] dump_header+0x90/0x229<br>
[ +0.007121]
[<ffffffffb2cfa982>] ? ktime_get_ts64+0x52/0xf0<br>
[ +0.007451]
[<ffffffffb2d5141f>] ? delayacct_end+0x8f/0xb0<br>
[ +0.007393]
[<ffffffffb2d9ac94>] oom_kill_process+0x254/0x3d0<br>
[ +0.007592]
[<ffffffffb2d9a73d>] ? oom_unkillable_task+0xcd/0x120<br>
[ +0.007978]
[<ffffffffb2d9a7e6>] ? find_lock_task_mm+0x56/0xc0<br>
[ +0.007729]
[<ffffffffb2d9b4d6>] <b>out_of_memory+0x4b6/0x4f0</b><br>
[ +0.007358]
[<ffffffffb330f423>] __alloc_pages_slowpath+0x5d6/0x724<br>
[ +0.008190]
[<ffffffffb2da18b5>] __alloc_pages_nodemask+0x405/0x420</p>
<p>Thanks,</p>
<p>Danyang<br>
</p>
</div>
</blockquote>
</div>
<br
clear="all">
<div><br>
</div>
-- <br>
<div dir="ltr">
<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="http://www.cse.buffalo.edu/~knepley/"
target="_blank" moz-do-not-send="true">https://www.cse.buffalo.edu/~knepley/</a><br>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</blockquote>
</div>
</div>
</blockquote>
</div>
<br
clear="all">
<div><br>
</div>
-- <br>
<div dir="ltr">
<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="http://www.cse.buffalo.edu/~knepley/"
target="_blank" moz-do-not-send="true">https://www.cse.buffalo.edu/~knepley/</a><br>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</blockquote>
</div>
</div>
</div>
</blockquote>
</div>
<br clear="all">
<div><br>
</div>
-- <br>
<div dir="ltr">
<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="http://www.cse.buffalo.edu/~knepley/"
target="_blank" moz-do-not-send="true">https://www.cse.buffalo.edu/~knepley/</a><br>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</blockquote>
</div>
</div>
</blockquote>
</div>
<br clear="all">
<div><br>
</div>
-- <br>
<div dir="ltr">
<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="http://www.cse.buffalo.edu/~knepley/"
target="_blank"
moz-do-not-send="true">https://www.cse.buffalo.edu/~knepley/</a><br>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</blockquote>
</div>
</div>
</blockquote>
</div>
</blockquote>
</div>
</blockquote>
</div>
</blockquote>
</div>
<br clear="all">
<div><br>
</div>
-- <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="http://www.cse.buffalo.edu/~knepley/"
target="_blank" moz-do-not-send="true">https://www.cse.buffalo.edu/~knepley/</a><br>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</blockquote>
</body>
</html>