On Fri, Apr 5, 2013 at 11:32 AM, Barry Smith bsmith at mcs.anl.gov wrote:
On Apr 5, 2013, at 10:18 AM, Dmitry Karpeev karpeev at mcs.anl.gov wrote:
Should PetscInitialize() take a comm argument, then?
No, this is such an uncommon case that it shouldn't be exposed to
everyone.
It seems
On Thu, Apr 4, 2013 at 7:42 PM, Jed Brown jedbrown at mcs.anl.gov wrote:
It seems to me this is related to Moose's new MultiApp capability: solving
different systems on subcommunicators (with the interaction between the
systems handled outside of PETSc)? It may be that the cleaner approach is
Should PetscInitialize() take a comm argument, then?
On Fri, Apr 5, 2013 at 10:15 AM, Barry Smith bsmith at mcs.anl.gov wrote:
On Apr 5, 2013, at 10:09 AM, Dmitry Karpeev karpeev at mcs.anl.gov wrote:
On Thu, Apr 4, 2013 at 7:42 PM, Jed Brown jedbrown at mcs.anl.gov wrote:
It seems
On Thu, Mar 7, 2013 at 10:08 AM, Mark F. Adams mark.adams at
columbia.eduwrote:
So you could add PCMGSetUseTrue(PC) and -pc_mg_true that would trigger
setting the true (outer) operator inside the PCSetUp_MG() even if it was
already set. You would still change/fix the current GAMG to
On Thu, Mar 7, 2013 at 11:00 AM, Jed Brown jedbrown at mcs.anl.gov wrote:
On Thu, Mar 7, 2013 at 10:53 AM, Dmitry Karpeev karpeev at mcs.anl.govwrote:
-pc_true is pretty ambiguous. how about
-pc_true_op false
? or true if you prefer.
Name the two matrices kspop and pcop
On Mar 6, 2013 10:05 PM, Barry Smith bsmith at mcs.anl.gov wrote:
On Mar 6, 2013, at 9:36 PM, Mark F. Adams mark.adams at columbia.edu
wrote:
Presumbly when you call PCReset() it zeros out all the pointers. If
you do not set the operators on the finest level again then it will use the
On Mar 6, 2013 10:29 PM, Barry Smith bsmith at mcs.anl.gov wrote:
On Mar 6, 2013, at 10:19 PM, Dmitry Karpeev karpeev at mcs.anl.gov wrote:
I suggested using 'exact' in place of 'true'. I guess it might have
gotten folded into quoted text or otherwise squeezed out.
Ok, thanks
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--
Dmitry Karpeev, Ph.D.
Assistant Computational Mathematician
Mathematics and Computer Science
Argonne National Laboratory
Argonne, Illinois, USA
and
Fellow
On Wed, Oct 17, 2012 at 2:11 PM, Jed Brown jedbrown at mcs.anl.gov wrote:
On Wed, Oct 17, 2012 at 2:02 PM, Shiyuan Gu sgu at anl.gov wrote:
Hi,
I am using petsc-3.3-p2. For my particular equation, for the first
few iterations, the residual norm is effectively reduced and the solution X
On Wed, Oct 17, 2012 at 2:56 PM, Peter Brune prbrune at gmail.com wrote:
On Wed, Oct 17, 2012 at 2:40 PM, Dmitry Karpeev karpeev at mcs.anl.govwrote:
On Wed, Oct 17, 2012 at 2:11 PM, Jed Brown jedbrown at mcs.anl.gov wrote:
On Wed, Oct 17, 2012 at 2:02 PM, Shiyuan Gu sgu at anl.gov wrote
17, 2012 at 3:01 PM, Dmitry Karpeev karpeev at
mcs.anl.govwrote:
On Wed, Oct 17, 2012 at 2:56 PM, Peter Brune prbrune at gmail.com wrote:
On Wed, Oct 17, 2012 at 2:40 PM, Dmitry Karpeev karpeev at
mcs.anl.govwrote:
On Wed, Oct 17, 2012 at 2:11 PM, Jed Brown jedbrown
On Wed, Oct 10, 2012 at 11:38 AM, Barry Smith bsmith at mcs.anl.gov wrote:
On Oct 10, 2012, at 8:50 AM, Jed Brown jedbrown at mcs.anl.gov wrote:
How did you get the MatNest?
What you describe is the right approach, but proper preallocation is
messy in the general case. There is a
On Wed, Oct 10, 2012 at 8:33 AM, Jed Brown jedbrown at mcs.anl.gov wrote:
The best way, by far, is to assemble the matrix as AIJ if that is what you
want to use. See MatGetLocalSubMatrix and SNES ex28. Using MATNEST should
he a run-time choice.
The caveat here is that currently there is no
It would be good to have a meaningful test case to motivate the further
development.
I initially wrote it to enable GAMG for KKT systems, but that is still on
the back burner,
although it might be coming back to the front, since elastic contact is
becoming more
important for MOOSE. With a good
On Thu, Sep 27, 2012 at 1:22 PM, Matthew Knepley knepley at gmail.com wrote:
On Thu, Sep 27, 2012 at 2:13 PM, Zou (Non-US), Ling ling.zou at
inl.govwrote:
Thank you Matt.
I've noticed that there is a different option '-snes_fd', and I guess
PETSc will use finite difference method for both
I use Moose with petsc-3.3 essentially every day, and it works for
everything I do.
There shouldn't be a problem in building the whole herd stack with
petsc-3.3.
Dmitry.
On Wed, Sep 19, 2012 at 3:43 PM, Zou (Non-US), Ling ling.zou at inl.govwrote:
good to know, I will try it.
Ling
On Wed,
On Sat, Aug 11, 2012 at 6:36 PM, Subramanya Gautam Sadasiva
ssadasiv at purdue.edu wrote:
Hi,
I was trying the snes solver on the obstacle problem by modifying
miscellaneous ex 7 and I get only linear convergence times.Is this what is
expected from the virs solver?
Yes, in the sense that
On Thu, Aug 9, 2012 at 10:02 AM, Colin McAuliffe cjm2176 at columbia.eduwrote:
Sanjay, thanks for the reply but I am avoiding using blocked format since
my problem has 10 dofs per node but only has either dofs 1-3 or 4-10 active
on a particular node. If I use block the equations I run out of
Have you looked at MatSetValuesLocal()
http://www.mcs.anl.gov/petsc/petsc-current/docs/manualpages/Mat/MatSetValuesLocal.html?
That routine might be close enough to what you need.
Dmitry.
On Sun, May 27, 2012 at 4:01 AM, Hui Zhang mike.hui.zhang at hotmail.comwrote:
Also, in the case that only
for PCASM I can re-use it because the partition of subdomains
remain the same.
Thanks!
On May 10, 2012, at 6:37 PM, Dmitry Karpeev wrote:
Hui,
There've been several changes to PCGASM ahead of the new release.
Let me go back and see if it affected the convergence problem.
Dmitry.
On Thu, May
It sounds like you need to write a new PC implementation, possibly reusing
pieces of PCASM.
Then you have control of what is being set up and when. Otherwise you are
essentially hacking
PCASM and using its internal subsolvers, which are only available after
PCSetUp(). PCCOMPOSITE
doesn't look
the problem?
Thanks.
Dmitry.
Thanks!
On May 11, 2012, at 7:17 PM, Dmitry Karpeev wrote:
You can call PCSetUp(pc) on either ASM or GASM, and that will destroy and
recreate the matrices (including calling
your modification subroutine), but not the subdomains or the subdomain
solvers
On Sat, May 19, 2012 at 4:10 AM, Hui Zhang mike.hui.zhang at hotmail.comwrote:
If PCASMSetSortIndices is used to set false, i.e. DO NOT sort indices,
is that true rows of submatrices are in the same order as the IS we passed
to
PCASMSetLocalSubdomains?
Yes.
Dmitry.
Thanks!
--
, is this normal?
The above matrix is obtained from PCASMGetSubKSP(pc,subksp) and
KSPGetOperators(subksp[0], ...).
This is odd. Can you explain a bit more what leads up to this, so we can
try and reproduce the problem?
Thanks.
Dmitry.
Thanks!
On May 11, 2012, at 7:17 PM, Dmitry Karpeev wrote
!
Hui
On May 11, 2012, at 7:17 PM, Dmitry Karpeev wrote:
You can call PCSetUp(pc) on either ASM or GASM, and that will destroy and
recreate the matrices (including calling
your modification subroutine), but not the subdomains or the subdomain
solvers.
If you just want to modify
scatter would be for you, since the details of the structure
of the direct sum vector are internal to GASM.
Dmitry.
Thanks!
On May 15, 2012, at 3:29 PM, Dmitry Karpeev wrote:
There are some additional minor fixes that mostly have to do with
outputting the subdomain information
On Tue, May 15, 2012 at 11:05 AM, Hui Zhang mike.hui.zhang at
hotmail.comwrote:
On May 15, 2012, at 5:42 PM, Dmitry Karpeev wrote:
On Tue, May 15, 2012 at 10:30 AM, Hui Zhang mike.hui.zhang at
hotmail.comwrote:
thanks for reply!
On May 15, 2012, at 5:19 PM, Dmitry Karpeev wrote
On Tue, May 15, 2012 at 11:25 AM, Hui Zhang mike.hui.zhang at
hotmail.comwrote:
On May 15, 2012, at 6:20 PM, Jed Brown wrote:
On Tue, May 15, 2012 at 10:11 AM, Hui Zhang mike.hui.zhang at
hotmail.comwrote:
Yes, see Mandel Dorhamann' paper
http://ccm.ucdenver.edu/reports/rep194.pdf ,
In principle, you can implement any type of line search in PETSc by
subclassing SNESLineSearch (although it requires going under the hood some,
as we generally think of LineSearch as a private object). If you can
elaborate on what you need, we can work with you guys to see how to
accomplish it
at
hotmail.comwrote:
Hi Dmitry,
thanks for useful hints. Good day!
Hui
On May 11, 2012, at 7:17 PM, Dmitry Karpeev wrote:
You can call PCSetUp(pc) on either ASM or GASM, and that will destroy and
recreate the matrices (including calling
your modification subroutine), but not the subdomains
it because the partition of subdomains remain
the same.
Thanks!
On May 10, 2012, at 6:37 PM, Dmitry Karpeev wrote:
Hui,
There've been several changes to PCGASM ahead of the new release.
Let me go back and see if it affected the convergence problem.
Dmitry.
On Thu, May 10, 2012 at 4:16 AM
, 2012, at 6:38 PM, Dmitry Karpeev wrote:
Okay, thanks.
I'll take a look.
Dmitry.
On Mon, Feb 20, 2012 at 11:30 AM, Hui Zhang mike.hui.zhang at
hotmail.comwrote:
For reference, my results are attached.
asm1.txt for asm with 1 process,
asm2.txt for asm with 2 processes,
gasm1.txt for gasm
MatCreate probably gets called inside SNES via MatDuplicate. Set a
breakpoint in MatCreate to catch it.
Dmitry.
On Thu, Mar 1, 2012 at 10:16 AM, Derek Gaston friedmud at gmail.com wrote:
In trying to track down where all of our memory usage is coming from I
noticed that PETSc is saying that
On Mon, Feb 20, 2012 at 12:59 AM, Hui Zhang mike.hui.zhang at
hotmail.comwrote:
On Feb 20, 2012, at 12:41 AM, Dmitry Karpeev wrote:
On Sun, Feb 19, 2012 at 3:08 PM, Hui Zhang mike.hui.zhang at
hotmail.comwrote:
I have a new problem: the results from ASM and GASM are different
numbers different
from others)
gasm2.txt for gasm with 2 processes
thank you,
Hui
On Feb 20, 2012, at 3:06 PM, Dmitry Karpeev wrote:
On Mon, Feb 20, 2012 at 12:59 AM, Hui Zhang mike.hui.zhang at
hotmail.comwrote:
On Feb 20, 2012, at 12:41 AM, Dmitry Karpeev wrote:
On Sun, Feb 19
, Dmitry Karpeev wrote:
You should be able to.
This behavior is the same as in PCASM,
except in GASM the matrices live on subcommunicators.
I am in transit right now, but I can take a closer look in Friday.
Dmitry
On Feb 15, 2012, at 8:07, Hui Zhang mike.hui.zhang at hotmail.com wrote
to SetLocalToGlobalMapping() for the
submat's
in the above func()?
thanks,
Hui
thanks,
Hui
On Feb 11, 2012, at 3:36 PM, Dmitry Karpeev wrote:
Yes, that's right.
There is no good way to help the user assemble the subdomains at the moment
beyond the 2D stuff.
It is expected
Yes, that's right.
There is no good way to help the user assemble the subdomains at the moment
beyond the 2D stuff.
It is expected that they are generated from mesh subdomains.
Each IS does carry the subdomains subcomm.
There is ISColoringToList() that is supposed to convert a coloring of
indices
Good to hear you got it sorted out!
I understand that PetscLayoutSetup() and VecScatterCreate() problems were
unrelated, is that right?
The PetscLayoutSetup() was hanging because some nodes took too long to
enter the call -- they were waiting
for mutex locks somewhere else; VecScatterCreate() was
Since the processor count is down, can you run it with debugging and see
what the arguments to PetscLayout are?
Dmitry
On Tue, Feb 7, 2012 at 9:00 PM, Derek Gaston friedmud at gmail.com wrote:
On Tue, Feb 7, 2012 at 7:56 PM, Matthew Knepley knepley at gmail.com wrote:
Same question: are
What is the solution that you end up converging to, and what are the
boundary conditions?
Thanks.
Dmitry.
On Mon, Jan 16, 2012 at 6:20 PM, Ataollah Mesgarnejad
amesga1 at tigers.lsu.edu wrote:
Dear all,
I'm trying to use SNESVI to solve a quadratic problem with box
constraints. My problem
On Wed, Jan 4, 2012 at 2:28 PM, Barry Smith bsmith at mcs.anl.gov wrote:
On Jan 4, 2012, at 1:18 PM, TAY wee-beng wrote:
Hi Barry and Jed,
So the 1st step should be checking the load balancing. If it's more or
less balanced, will slicing it in 3 directions further improve the speed?
-
Dmitry Karpeev, Ph.D.
Assistant Computational Mathematician
Mathematics and Computer Science
Argonne National Laboratory
Argonne, Illinois, USA
and
Fellow
Computation Institute
University of Chicago
5735 S. Ellis Avenue
Chicago, IL 60637
---
Phone: 630-252-1229
petsc-dev has PCGASM, which is a generalization of PCASM that allows for
subdomains that live on a subcommunicator of the PC's communicator. The API
is nearly identical to ASM's, and GASM will eventually replace ASM, once we
are reasonably sure
it works correctly (e.g., I'm chasing down a small
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