If i may, you can use the command line option "-mat_mumps_icntl_4 2"
MUMPS then gives infomations about the factorization step, such as the
estimated needed memory.
Best regards,
Yann
Le 5/23/2023 à 11:59 AM, Matthew Knepley a écrit :
On Mon, May 22, 2023 at 10:42 PM Zongze Yang
;CHKERRV(ierr);
On Tue, Dec 13, 2022 at 3:38 AM Yann Jobic <mailto:yann.jo...@univ-amu.fr>> wrote:
Le 12/13/2022 à 2:04 AM, Mark Adams a écrit :
> PETSc does not store the coordinates for high order elements (ie,
the
> "midside nodes").
It could really help me !
If i have the node coordinates in the reference element, then it's easy
to project them to the real space. But i couldn't find a way to have
them, so if you could give me some guidance, it could be really helpful.
Thanks,
Yann
Mark
On Mon, Dec 12, 2022 at 6:06 PM
Le 12/13/2022 à 5:43 AM, Matthew Knepley a écrit :
On Mon, Dec 12, 2022 at 6:06 PM Yann Jobic <mailto:yann.jo...@univ-amu.fr>> wrote:
Hi all,
I'm trying to get the coords of the dofs of a DMPlex for a PetscFE
discretization, for orders greater than 1.
I'm struggli
Hi all,
I'm trying to get the coords of the dofs of a DMPlex for a PetscFE
discretization, for orders greater than 1.
I'm struggling to run dm/impls/plex/tutorials/ex8.c
I've got the following error (with option -view_coord) :
[0]PETSC ERROR: - Error Message
There is this factor also in front of the rectangle, which should 1/4
for a unit rectangle of dim 2, but it's also 0.5.
Thanks,
Yann
Le 10/27/2022 à 6:23 PM, Mark Adams a écrit :
Area of a unit triangle is (1x1)/2 I would guess.
On Thu, Oct 27, 2022 at 11:32 AM Yann Jobic <mailto:yann
Hello,
I'm trying to understand how to use the lowlevel Petsc Finit Element
Framework. I've got few questions about it.
1) I'm checking the determinant of the Jacobian transformation from real
space to the parametric one. The source code is in :
there is no slot for 107 column.
Barry
On Feb 9, 2022, at 10:33 AM, Yann Jobic <mailto:yann.jo...@univ-amu.fr>> wrote:
I'm struggling for a very simple error that i can not see. I'm running
in a sequential program, for the test.
MatView is giving me for the row 125 :
row 125: (125, 0.)
ixf.c:582
I'm obviously doing something wrong, but where ?
Thanks,
Yann
Le 2/9/2022 à 12:46 PM, Matthew Knepley a écrit :
On Wed, Feb 9, 2022 at 5:56 AM Yann Jobic <mailto:yann.jo...@univ-amu.fr>> wrote:
Dear All,
I'm facing a strange problem. I did not succeed in putting s
I'm struggling for a very simple error that i can not see. I'm running
in a sequential program, for the test.
MatView is giving me for the row 125 :
row 125: (125, 0.) (107, 0.)
I'm getting those values with MatGetRow :
row=125
CALL
Dear All,
I'm facing a strange problem. I did not succeed in putting some values
in an MPI matrix. I'm using Petsc 3.16.4. The matrix is pre-allocated,
with some zeroes at the right position.
To explain the context, it's a finit elements code, thus in the tangent
matrix creation, i've got a
Le 12/3/2020 à 9:14 PM, Matthew Knepley a écrit :
On Thu, Dec 3, 2020 at 3:10 PM Yann Jobic <mailto:yann.jo...@univ-amu.fr>> wrote:
Hi all,
I'm running on a surprising compilation problem with petsc 14.1 and
14.2 on centos 7.9, with the intel compiler (17 and 18).
Hi Stefano,
You're right, i just switched the rows and colomns, and it's working
fine. However, i've done this in order to have better performance when i
access the rows, with MatGetRow. With this order, i need
MatGetColumnVector, which is believe is kind of slow, as stated in the
comments
Hello Pierre,
I just tested it, it's working just fine !
I thought i could have problems using mumps, as i rapidly read your
article, and that i may be using MatMatSolve, but no, it's working.
I have correct results.
This interface for multi-RHS is indeed very handy.
One question : I used
Hi all,
I want to decompose a matrix in parallel for only one direction, the
columns, for a dense matrix, loaded from a binary file. I tried to use :
MatCreateDense(PETSC_COMM_WORLD,NumberOfRhs,matLocNbCols,NumberOfRhs,matNbCols,NULL,);
with matLocNbCols the number of local columns of a linear
Hi matt,
Many thanks for the help !!
Le 3/26/2020 à 11:38 PM, Matthew Knepley a écrit :
17 18
7-8-9-1415
| | |
16,3 4 5,6 11 12,13
| | |
1-2-3-9-10
Hi matt
Le 3/23/2020 à 2:24 PM, Matthew Knepley a écrit :
On Wed, Mar 18, 2020 at 12:58 PM Yann Jobic <mailto:yann.jo...@univ-amu.fr>> wrote:
Hi matt,
Le 3/17/2020 à 4:00 PM, Matthew Knepley a écrit :
> On Mon, Mar 16, 2020 at 5:20 PM Yann Jobic
mailto:yann.jo...
Hi matt,
Le 3/17/2020 à 4:00 PM, Matthew Knepley a écrit :
On Mon, Mar 16, 2020 at 5:20 PM Yann Jobic <mailto:yann.jo...@univ-amu.fr>> wrote:
Hi all,
I would like to implement a nodal DG with the DMPlex interface.
Therefore, i must add the internal nodes to the DM (
Hi all,
I would like to implement a nodal DG with the DMPlex interface.
Therefore, i must add the internal nodes to the DM (GLL nodes), with the
constrains :
1) Add them as solution points, with correct coordinates (and keep the
good rotational ordering)
2) Find the shared nodes at faces in
tatic : " ${STATIC_LIBS})
And it works. Is it the right way to do it ?
Thanks,
Best regards,
Yann
Le 11/03/2020 à 11:59, Yann Jobic a écrit :
Hi all,
I'm trying to create a correct CMakeLists.txt in order to compile a
petsc program.
I can compile my code, but i cannot link it.
I have
Hi all,
I'm trying to create a correct CMakeLists.txt in order to compile a
petsc program.
I can compile my code, but i cannot link it.
I have this link command :
/local/lib/openmpi/gcc8/4.0.3/bin/mpicc -g -rdynamic
CMakeFiles/Test1.dir/src/dvm_dg1D_qff_2dV.c.o
. Was the email thread referring to
spatial dimension?
Yann Jobic writes:
Hello,
I read in the email archive (from 2016) that, at that time, the number
of synchronized dof (in MPI/ghost cells sense) is 3 or 4.
Is that still the case ? I would like to use PETSc for solving the
Boltzmann equation (via
Hello,
I read in the email archive (from 2016) that, at that time, the number
of synchronized dof (in MPI/ghost cells sense) is 3 or 4.
Is that still the case ? I would like to use PETSc for solving the
Boltzmann equation (via Discreet velocity method, which means a lot of
dof per node).
Is
Hi Jose,
My matrices were not correct...
It's now running fine, with mumps.
Thanks for the help,
Best regards,
Yann
On 20/11/2019 15:22, Jose E. Roman wrote:
El 19 nov 2019, a las 22:05, Yann Jobic escribió:
Thanks for the fast answer !
The error coming from MUMPS is :
On return from
be competitive.
Jose
El 19 nov 2019, a las 17:06, Yann Jobic via petsc-users
escribió:
Hi all,
I'm trying to solve a huge generalize (unsymetric) eigen value problem with
SLEPc + MUMPS. We actually failed to allocate the requested memory for MUMPS
factorization (we tried BVVECS).
We would like
Hi all,
I'm trying to solve a huge generalize (unsymetric) eigen value problem
with SLEPc + MUMPS. We actually failed to allocate the requested memory
for MUMPS factorization (we tried BVVECS).
We would like to know if there is an alternate iterative way of solving
such problems.
Thank you,
Hi, sorry if this is an obvious question, but i don't know how to use
the ghost nodes with a DMPlex.
The procedure i do is as follow :
1) create the DMPlex
2) distribute it
3) Create the Matrix and associated vectors with DMCreateMatrix,
DMCreateGlobalVector and DMCreateLocalVector
4) In
On 08/01/2019 19:45, Yann Jobic via petsc-users wrote:
On 05/01/2019 13:23, Matthew Knepley wrote:
On Sat, Jan 5, 2019 at 4:04 AM Yann Jobic <mailto:yann.jo...@univ-amu.fr>> wrote:
On 05/01/2019 02:36, Matthew Knepley wrote:
On Fri, Jan 4, 2019 at 10:04 AM Yann Jobic
It's clear now !
Many thanks for the explanations.
Yann
On 08/01/2019 17:30, Jed Brown wrote:
Yes, tensor product of Lagrange polynomials, often written as Q_k.
Degrees of freedom associated with Dirichlet boundary conditions have
been removed in the systems you're looking at.
Yann Jobic via
On 05/01/2019 13:23, Matthew Knepley wrote:
On Sat, Jan 5, 2019 at 4:04 AM Yann Jobic <mailto:yann.jo...@univ-amu.fr>> wrote:
On 05/01/2019 02:36, Matthew Knepley wrote:
On Fri, Jan 4, 2019 at 10:04 AM Yann Jobic via petsc-users
mailto:petsc-users@mcs.anl.go
Dear Petsc Users,
I've been playing with the option "space_degree", in 2D, for a space
discretisation of 4 cells (2x2), for a poisson problem, and i wonder
what are the underlying concepts.
With a space degree 2, i get a 9x9 algebraic system, and i've got a
solution convergence order
Le 05/01/2019 à 13:23, Matthew Knepley a écrit :
On Sat, Jan 5, 2019 at 4:04 AM Yann Jobic <mailto:yann.jo...@univ-amu.fr>> wrote:
On 05/01/2019 02:36, Matthew Knepley wrote:
On Fri, Jan 4, 2019 at 10:04 AM Yann Jobic via petsc-users
mailto:petsc-users@mcs.anl.go
On 05/01/2019 02:36, Matthew Knepley wrote:
On Fri, Jan 4, 2019 at 10:04 AM Yann Jobic via petsc-users
mailto:petsc-users@mcs.anl.gov>> wrote:
Dear Petsc Users,
I'm using DMPlexCreateFromCellList to create my DM. I would like
to have
an order 2 geometry.
It's w
Dear Petsc Users,
I'm using DMPlexCreateFromCellList to create my DM. I would like to have
an order 2 geometry.
It's working fine in 2D for elements of type Q9.
I checked that it's working correctly by using
DMPlexComputeCellGeometryFEM, and compute the value of the determinant
On 20/12/2018 21:33, Matthew Knepley wrote:
On Thu, Dec 20, 2018 at 2:35 PM Yann JOBIC <mailto:yann.jo...@univ-amu.fr>> wrote:
Le 20/12/2018 à 19:05, Matthew Knepley a écrit :
On Thu, Dec 20, 2018 at 12:56 PM Yann JOBIC
mailto:yann.jo...@univ-amu.fr>> wrote:
Le 20/12/2018 à 19:05, Matthew Knepley a écrit :
On Thu, Dec 20, 2018 at 12:56 PM Yann JOBIC <mailto:yann.jo...@univ-amu.fr>> wrote:
Le 20/12/2018 à 16:40, Matthew Knepley a écrit :
On Thu, Dec 20, 2018 at 9:33 AM Yann JOBIC via petsc-users
mailto:petsc-users@mcs.anl.go
Le 20/12/2018 à 16:40, Matthew Knepley a écrit :
On Thu, Dec 20, 2018 at 9:33 AM Yann JOBIC via petsc-users
mailto:petsc-users@mcs.anl.gov>> wrote:
Dear Petsc Users,
When i'm using DMPlexCreateBoxMesh, my code works fine. However,
when i
load the "exact" same m
Dear Petsc Users,
When i'm using DMPlexCreateBoxMesh, my code works fine. However, when i
load the "exact" same mesh from an HDF5 file, it's not working anymore
(Nonlinear solve did not converge due to DIVERGED_FNORM_NAN iterations 0).
The mesh view when i use DMPlexCreateBoxMesh looks like
Le 18/12/2018 à 14:26, Matthew Knepley a écrit :
On Tue, Dec 18, 2018 at 5:23 AM Yann JOBIC via petsc-users
mailto:petsc-users@mcs.anl.gov>> wrote:
Le 18/12/2018 à 03:01, Matthew Knepley a écrit :
On Mon, Dec 17, 2018 at 4:24 PM Yann Jobic via petsc-users
mailto:petsc
Le 18/12/2018 à 14:26, Matthew Knepley a écrit :
On Tue, Dec 18, 2018 at 5:23 AM Yann JOBIC via petsc-users
mailto:petsc-users@mcs.anl.gov>> wrote:
Le 18/12/2018 à 03:01, Matthew Knepley a écrit :
On Mon, Dec 17, 2018 at 4:24 PM Yann Jobic via petsc-users
mailto:petsc
Le 18/12/2018 à 03:01, Matthew Knepley a écrit :
On Mon, Dec 17, 2018 at 4:24 PM Yann Jobic via petsc-users
mailto:petsc-users@mcs.anl.gov>> wrote:
Dear petsc users,
I'm using petsc FEM framework, with p4est. I'm getting a strange
error,
when changing the number of
I'd like to add that it only occurs in parallel.
Yann
On 17/12/2018 22:24, Yann Jobic via petsc-users wrote:
Dear petsc users,
I'm using petsc FEM framework, with p4est. I'm getting a strange
error, when changing the number of point in DMPlexCreateBoxMesh() (2D,
20x20 is ok, 22x22
Dear petsc users,
I'm using petsc FEM framework, with p4est. I'm getting a strange error,
when changing the number of point in DMPlexCreateBoxMesh() (2D, 20x20 is
ok, 22x22 is not) :
[0]PETSC ERROR: Nonconforming object sizes
[0]PETSC ERROR: The section point closure size 20 != dual space
to do it with DMPlex?
The PetscSF given by DMPlexDistribute has the info how mesh points are
distributed.
Can I create a mapping from it or it can be used to map mesh point in
natural ordering to global ordering or the other way around?
Thanks,
Josh
--
___
Yann
Hi Ellen,
I've made an old code (i forgot in which version it's working) that
gives local coordinates and connectivity of a distributed DM.
I didn't check that it's working again. I'll also work on that on the
future.
If it can help, i send you my ugly code (i didn't clean it).
Yann
On
Hi Isaac,
It's working !!
Many thanks !
Regards,
Yann
Le 04/04/2018 à 15:18, Tobin Isaac a écrit :
Hi Yann,
On Tue, Apr 03, 2018 at 05:29:39PM +0200, Yann Jobic wrote:
Hi,
Thanks for the fast answer ! And sorry for my late one...
As a test, i'm using ex2.c in test/forest directory.
I'm
,
Toby
On Mon, Apr 02, 2018 at 04:42:29PM +0200, yann JOBIC wrote:
Hi,
I'm using DMForestTransferVec, as in "dm/impls/forest/examples/tests/ex2.c".
I would like to use it with a space approximation order at zero
(-petscspace_order 0). However, in this case, it's not working (valgr
Hi,
I'm using DMForestTransferVec, as in "dm/impls/forest/examples/tests/ex2.c".
I would like to use it with a space approximation order at zero
(-petscspace_order 0). However, in this case, it's not working (valgrind
output of ex2.c from forest test) :
==8604== Conditional jump or move
Hello Matt,
Le 15/02/2018 à 00:41, Matthew Knepley a écrit :
On Tue, Jan 23, 2018 at 11:14 AM, Yann Jobic <yann.jo...@univ-amu.fr
<mailto:yann.jo...@univ-amu.fr>> wrote:
Hello,
I'm trying to understand the numbering of quadrature points in
order to solve the FEM sys
Hello,
I'm trying to understand the numbering of quadrature points in order to
solve the FEM system, and how you manage this numbering in order to
allow conformal mesh. I looked in several files in order to understand.
Here's what i understood so far (which is not far...)
I took the example
On 12/19/2017 05:50 PM, Matthew Knepley wrote:
On Tue, Dec 19, 2017 at 11:40 AM, Yann JOBIC <yann.jo...@univ-amu.fr
<mailto:yann.jo...@univ-amu.fr>> wrote:
Hello,
We want to extract the cell connectivity from a DMPlex. We have no
problem for a sequential run.
Hello,
We want to extract the cell connectivity from a DMPlex. We have no
problem for a sequential run.
However for parallel ones, we need to get the node numbering in the
global ordering, as when we distribute the mesh, we only have local
nodes, and thus local numbering.
It seems that we
Le 07/12/2017 à 08:23, Mohammad Hassan Baghaei a écrit :
Hello
I am using DMPlex to construct a fully circular 2D domain for my PDEs.
As I am discretizing the PDEs using finite difference method, I need
to know , to define the layout of PetscSection, how I can find the
boundary condition
Hello,
I tried the master of the git directory, as you have merged the branch.
It works ! Many thanks for the fix.
Best regards,
Yann
Le 22/11/2017 à 18:51, Matthew Knepley a écrit :
On Wed, Nov 22, 2017 at 12:39 PM, Yann Jobic <yann.jo...@univ-amu.fr
<mailto:yann.jo...@univ-amu.fr&g
iple where the possible bug should be.
I now use a simple Poisson FE test case in order to check the boundaries.
I hope these details helps a little...
Regards,
Yann
Le 24/11/2017 à 11:34, Yann Jobic a écrit :
Le 23/11/2017 à 13:45, Matthew Knepley a écrit :
On Thu, Nov 23, 2017 at 3:39 AM,
Le 23/11/2017 à 13:45, Matthew Knepley a écrit :
On Thu, Nov 23, 2017 at 3:39 AM, Yann Jobic <yann.jo...@univ-amu.fr
<mailto:yann.jo...@univ-amu.fr>> wrote:
Hello,
I checked out the branch knepley/fix-plex-bc-multiple, but i now
have a strange problem.
I split
Hello,
Le 23/11/2017 à 13:45, Matthew Knepley a écrit :
On Thu, Nov 23, 2017 at 3:39 AM, Yann Jobic <yann.jo...@univ-amu.fr
<mailto:yann.jo...@univ-amu.fr>> wrote:
Hello,
I checked out the branch knepley/fix-plex-bc-multiple, but i now
have a strange problem.
On Wed, Nov 22, 2017 at 12:39 PM, Yann Jobic <yann.jo...@univ-amu.fr
<mailto:yann.jo...@univ-amu.fr>> wrote:
Hello,
I've found a strange behavior when looking into a bug for the
pressure convergence of a simple Navier-Stokes problem using PetscFE.
I followed many example
Hello,
I've found a strange behavior when looking into a bug for the pressure
convergence of a simple Navier-Stokes problem using PetscFE.
I followed many examples for labeling boundary faces. I first use
DMPlexMarkBoundaryFaces, (label=1 to the faces).
I find those faces using
Hi,
Finally i used DMPlexCreateFromCellList, i don't know why i didn't try
it first. I indeed create hex cells (so far).
And it works !
Thanks for the help,
Yann
Le 20/11/2017 à 14:47, Matthew Knepley a écrit :
On Sun, Nov 19, 2017 at 4:59 PM, Yann Jobic <yann.jo...@univ-amu
Hello,
I want to create my custom DMPLEX by using DMPlexCreateFromDAG(). I
tried with only one cell. I have :
type: plex
Mesh 'DM_0x3dd7df0_0':
orientation is missing
cap --> base:
[0] Max sizes cone: 8 support: 1
[0]: 1 > 0
[0]: 2 > 0
[0]: 3 > 0
[0]: 4 > 0
[0]: 5 > 0
On 11/09/2017 07:22 PM, Matthew Knepley wrote:
On Thu, Nov 9, 2017 at 1:20 PM, Yann Jobic <yann.jo...@univ-amu.fr
<mailto:yann.jo...@univ-amu.fr>> wrote:
Hello,
I'm trying to access to the values of a p4est forest.
I know how to do that by converting my forest
Hello,
I'm trying to access to the values of a p4est forest.
I know how to do that by converting my forest to a DMPlex, and then use
DMPlexVecGetClosure over the converted DM.
However, i want to assign a label and access to the values of the forest
directly.
Is it possible ?
Thanks,
Yann
---
Hi,
I succeed in having a basic AMR running on my FE advection/diffusion
problem ( https://mycore.core-cloud.net/index.php/s/DmiiTwKUpV9z5qL)
I now want to have multiple levels in my octree AMR from p4est.
I tried a lot with IS tagged arrays, but i didn't succeed so far. When i
get from
Thanks for the fast answer !
Le 05/11/2017 à 20:06, Matthew Knepley a écrit :
On Sun, Nov 5, 2017 at 2:04 PM, Matthew Knepley <knep...@gmail.com
<mailto:knep...@gmail.com>> wrote:
On Sun, Nov 5, 2017 at 1:45 PM, Yann Jobic <yann.jo...@univ-amu.fr
<mailto:yann.jo...@u
Dear PETSc expert,
I first correctly solve the advection/diffusion equation, with the
advection/diffusion of a gaussian, in a rotate field.
I'm using finit element, with PetscFE and the velocity field is in an
auxillary one, in order to correctly set the residual and the jacobian.
Then, i
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