E") because it was the only
> difference with my .geo files.
>
> Bruno
>
> Le mar. 22 sept. 2020 à 11:20, yuesu jin a écrit :
> >
> > Dear Bruno,
> > The problem was solved after I removed the
> 'SetFactory("OpenCASCADE")'. Here are two mesh files wit
set the physical groups for the curves and the
> points. This means nothing in deal.II. A vertex does not have a
> boundary ID. You need all the external surfaces and the volume to have
> a physical group. That's it.
>
> Bruno
>
> Le mar. 22 sept. 2020 à 10:24, yuesu jin a écrit :
> >
boundary indicator to a line: the line
>> with end vertices -1 and 0 does not exist.*
>> --------
>>
>> I attached the gmsh .geo file in this email. There is no vertex -1
>> actually. Could you tell me what's wrong with my mesh generation
-1
actually. Could you tell me what's wrong with my mesh generation?
Thank you very much!
Best regards,
--
Yuesu Jin,
Ph.D student,
University of Houston,
College of Natural Sciences and Mathematics,
Department of Earth and Atmospheric Sciences,
Houston, Texas 77204-5008
346-404-2062
--
T
Dear Dr.Bangerth,
I found it just before, it is on the page of FEValuesView (
https://www.dealii.org/current/doxygen/deal.II/classFEValuesViews_1_1Vector.html).
Thank you very much!
Best regards,
Yuesu
On Mon, Sep 7, 2020 at 11:00 PM Wolfgang Bangerth
wrote:
> On 9/7/20 6:21 PM, yuesu
Dear all,
I want to contract the gradient tensor with another vector, such as
T_ij*n_j, the gradient tensor is d_j u_i (d is the partial differential
operator). I am wondering what is the first index of gradient tensor, i or
j? Thank you !
Best regards,
Yuesu
--
Yuesu Jin,
Ph.D student
Dear Dr. Bangerth,
I read the step.20 again. It solves my question. I didn't understand what
the non-primitive element talks about, now I know the necessity of that.
Thank you!
Best regards,
Yuesu
On Thu, Sep 3, 2020 at 5:38 PM yuesu jin wrote:
> Dear Dr. Bangerth,
> Thank you very m
the gradient of the non-zero component in
the vector shape function such that it is a vector?
Thank you again!
Best regards,
On Thu, Sep 3, 2020 at 3:11 PM Wolfgang Bangerth
wrote:
> On 9/3/20 1:28 PM, yuesu jin wrote:
> >I am working on vector value finite element modelin
categories. Could
you give me the documentation page about these two functions?
Best regards,
--
Yuesu Jin,
Ph.D student,
University of Houston,
College of Natural Sciences and Mathematics,
Department of Earth and Atmospheric Sciences,
Houston, Texas 77204-5008
346-404-2062
--
The deal.II project
OK, I see. I will do it, thank you! I will let you know if I get any result.
On Mon, Aug 17, 2020 at 7:06 PM Wolfgang Bangerth
wrote:
> On 8/17/20 6:01 PM, yuesu jin wrote:
> > I did nothing to verify those properties. because the single thread
> CG
> > solver conv
Dear Dr.Bangerth,
I did nothing to verify those properties. because the single thread CG
solver converged well. I used different preconditioners in parallel
version and single thread version. In the parallel version I used block
Jacobi and in the single thread version I used Jacobi. How can I
Sure, I will add my progress following this email.
Best regards,
On Sun, Aug 16, 2020 at 7:47 PM Wolfgang Bangerth
wrote:
> On 8/16/20 6:38 PM, yuesu jin wrote:
> > Thank you very much! I found step-62 yesterday and I have
> compared the
> > difference between them. I
regards,
Yuesu
On Sun, Aug 16, 2020 at 7:20 PM Wolfgang Bangerth
wrote:
> On 8/14/20 9:20 PM, yuesu jin wrote:
> > I tried a few levels of the tolerance, 1e-3, 1e-4 ,1e-6 and 1e-8. 1e-3
> > converged because that is in the same level with the solution. Error
> occurs
> > b
u are subscribed to the Google Groups
> "deal.II User Group" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to dealii+unsubscr...@googlegroups.com.
> To view this discussion on the web visit
> https://groups.google.com/d/msgid/dealii/1
if I directly set up the matrix and rhs
vector as complex ? Why does step-29 says "*it is often more
convenient to split complex valued functions into their real and imaginary
parts and use separate scalar finite element fields for discretizing each
one of them*" ?
Best wishes,
--
Yuesu
regards,
Yuesu
On Fri, Aug 14, 2020 at 10:14 PM Wolfgang Bangerth
wrote:
> On 8/14/20 5:53 PM, yuesu jin wrote:
> >
> > I also wrote a single thread CG version, which converges well. The
> > preconditioner in the parallel version is blockJacobi but the single
> thread
&g
the
locally_owned_dofs_per_subomain, we can already use this_mpi_process to
access the partition vector, which means the subdomain partition has been
done according to the n_mpi_processes.
Best regards,
--
Yuesu Jin,
Ph.D student,
University of Houston,
College of Natural Sciences and Mathematics,
Department
ulate a Taylor-Couette flow.
> If you wanted to use a 3D mesh, then you would make a Physical Volume(0)
> and you would use the Physical Surface for the boundary conditions
>
> Best
> Bruno
>
>
>
> On Wednesday, 5 August 2020 20:36:09 UTC-4, yuesu jin wrote:
>>
>
Dear all,
I want to set up one Dirchlet boundary condition and one Neumann boundary
condition on a 2d mesh, which is generated by gmsh. How can I set up the
mesh file in order to tell dealii with the boundary id when I input the
.msh file into dealii? Thanks!
Best regards,
--
Yuesu Jin,
Ph.D
group and stop receiving emails from it, send an
> email to dealii+unsubscr...@googlegroups.com.
> To view this discussion on the web visit
> https://groups.google.com/d/msgid/dealii/feed2cda-81f9-4e22-8089-beaf9b2ae2b0o%40googlegroups.com
> .
>
--
Yuesu Jin,
Ph.D student,
University o
gle.com/d/msgid/dealii/3c3bd51a-eaf4-49ce-af0f-fd6477100123o%40googlegroups.com
> .
>
--
Yuesu Jin,
Ph.D student,
University of Houston,
College of Natural Sciences and Mathematics,
Department of Earth and Atmospheric Sciences,
Houston, Texas 77204-5008
346-404-2062
--
The deal.II pr
it gives 2*9+4*1=22 degrees of freedom, it equals the base
function with the vector components.
[image: image.png]
u(0) should have two base element [phi(0),0] and [phi(0) 0], u(1) should
have two base elements as well [0 phi(0)] [0 phi(1)], so here should be 4
rather than 2 degrees of freedom.
Best r
-
>> This message does't appear when I use a single node to run it. Does the
>> sparsity tools automatically overload to partition_metis under parallel
>> case?
>> Thank you!
>> Best regards
>> --
>> Yuesu Jin,
>> Ph.D s
configure
deal.II with METIS.
This message does't appear when I use a single node to run it. Does the
sparsity tools automatically overload to partition_metis under parallel
case?
Thank you!
Best regards
--
Yuesu Jin,
Ph.D student,
University o
esponding degree of freedom.
>
> Best,
> Daniel
>
> Am So., 26. Juli 2020 um 16:58 Uhr schrieb yuesu jin >:
>
>> Dear all,
>> I am working on an elastic wave simulation code which needs to set up
>> receivers on the surface boundaries to record the waveform.
Dear all,
I am working on an elastic wave simulation code which needs to set up
receivers on the surface boundaries to record the waveform. In this case,
how can I link the point coordinate with the dof handlers and extract
values from the solution vector? Thank you!
Best regards,
--
Yuesu
Dear all,
This problem has been solved. I copied the petscversion.h file to the
arch/include folder therefore cmake found all petsc files and finished
compilation.
Best regards
On Fri, Jul 24, 2020 at 3:17 PM yuesu jin wrote:
> Dear Daniel,
> Thank you for the instruction!
SC_DIR}/lib64.
> See if you can adjust PETSC_DIR accordingly.
>
> Best,
> Daniel
>
> Am Fr., 24. Juli 2020 um 01:18 Uhr schrieb yuesu jin >:
>
>> Dear all,
>> I am installing deal.ii with petsc on a cluster. After I compiled the
>> petsc library (The arch fol
** Required variable
"PETSC_INCLUDE_DIR_ARCH" set to NOTFOUND ***
-- Could NOT find PETSC
-- DEAL_II_WITH_PETSC has unmet external dependencies.
--
Yuesu Jin,
Ph.D student,
University of Houston,
College of Natural Sciences and Mathematics,
Department of Earth and Atmospheric Sciences,
Houston,
Dear Bruno,
Thank you very much! I am using mpi/gcc right now. I will change to
Intel mpi library.
Best regards
On Thu, Jul 23, 2020 at 9:08 PM Bruno Turcksin
wrote:
> Yuesu Jin,
>
> You don't need to compile your own PETSc but you need to use the same MPI
> library than the on
ld not find a sufficient PETSC installation: PETSC is compiled
against a different MPI library than the one deal.II picked up.
-- DEAL_II_WITH_PETSC has unmet external dependencies.
--
Yuesu Jin,
Ph.D student,
University of Houston,
College of Natural Sciences and Mathematics,
Department of Earth and
Dear all,
The problem has been solved. The GCC version was too old to compile the
new version of deal.ii. I changed the gcc to a newer version which gave a
very good result. Thanks!
Best regards
On Thu, Jul 23, 2020 at 11:56 AM yuesu jin wrote:
> Dear Bruno,
> Ok, I will try a n
Dear Bruno,
Ok, I will try a new gcc for compilation. Thank you!
On Thu, Jul 23, 2020 at 7:57 AM Bruno Turcksin
wrote:
> Yuesu Lin,
>
> Do you have access to a newer compiler? gcc 4.8.5 is very old.
>
> Best,
>
> Bruno
>
> On Wednesday, July 22, 2020 at 11:26:0
dealii-9.2.0/source/dofs/dof_tools_sparsity.cc:689:3:
note: template void
dealii::DoFTools::make_flux_sparsity_pattern(const DoFHandlerType&,
SparsityPatternType&)
make_flux_sparsity_pattern(const DoFHandlerType ,
^
On Wed, Jul 22, 2020 at 9:28 PM Timo Heister wrote:
> Yuesu Jin
tor iter = *this;
^
make: *** [all] Error 2
Could you give me some instructions about that? Thank you!
--
Yuesu Jin,
Ph.D student,
University of Houston,
College of Natural Sciences and Mathematics,
Department of Earth and Atmospheric Sciences,
Houston, Texas 77204-5008
346-404-2062
--
The deal.II project is
Hope that helps.
>
> Best,
> Konrad
>
>
> On Wednesday, September 4, 2019 at 4:44:24 AM UTC+2, yuesu jin wrote:
>>
>> Hi all,
>>
>> I have a question about the constructor initialization list. In some
>> tutorials, we initialize the dof_handler in
Hi all,
I have a question about the constructor initialization list. In some
tutorials, we initialize the dof_handler in the constructor with parameter
triangulation, however, the triangulation is initialized in some member
function within this class, which means when we initialize the class,
t is here:
> https://dealii.org/current/doxygen/deal.II/classDoFCellAccessor-members.html
> (DofCellAccessor)
>
> Best,
>
> Bruno
>
> On Monday, August 26, 2019 at 10:42:00 PM UTC-4, yuesu jin wrote:
>>
>> Hi all,
>> When we iterate the cell within triangulati
Hi all,
When we iterate the cell within triangulation/dof_handler, we often use
functions such as cell->face(), cell->vertices() etc. Where can I find all
the member function in our documentation webpage? Thanks a lot!
--
Yuesu Jin,
Ph.D student,
University of Houston,
College of N
up and stop receiving emails from it, send an
> email to dealii+unsubscr...@googlegroups.com.
> To view this discussion on the web visit
> https://groups.google.com/d/msgid/dealii/a9e938ad-06b6-49e1-9e99-91bafd4e8fc4%40googlegroups.com
> <https://groups.google.com/d/msgid/dealii/a9e93
on system_matrix
and system_rhs. Do those two procedure have the same effect?
---
Yuesu Jin,
Ph.D student,
University of Houston,
College of Natural Sciences and Mathematics,
Department of Earth and Atmospheric Sciences,
Houston, Texas 77204-5008
346-404-2062
--
The deal.II project is located
. It really
cost my time!
Best regards,
Yuesu
On Mon, Aug 12, 2019 at 12:12 PM Wolfgang Bangerth
wrote:
> On 8/12/19 11:01 AM, yuesu jin wrote:
> >
> > Installation completed, what a stupid mistake I made! Appreciate for
> > your support!
> > All the p
/libmkl_intel_lp64.so: undefined symbol:
mkl_blas_dsyrk*
I try to fix it .
Best regards,
Yuesu
On Mon, Aug 12, 2019 at 8:30 AM Wolfgang Bangerth
wrote:
> On 8/11/19 9:08 PM, yuesu jin wrote:
> > AH... I understand,/*cmake -DCMAKE_INSTALL_PREFIX=[Directory you want
> to
> > insta
AH... I understand,* cmake -DCMAKE_INSTALL_PREFIX=[Directory you want to
install] [Directory you build the program]*
I have installed it again in a new folder, the folder now is 3.6GB, which
means something has been installed in that. But the message is still there:
Hi Daniel,
Thank you for your reply. I misunderstood build and install. I thought
after I setup the build folder and make install, the program should be
compiled in that build folder, because I installed the 9.0.1 version just
run the command as those in README file. Now, I first input
*cmake
e53%40googlegroups.com
> <https://groups.google.com/d/msgid/dealii/fa4a34b5-70c9-4a8a-accb-dfc96cab1e53%40googlegroups.com?utm_medium=email_source=footer>
> .
>
--
Yuesu Jin,
Ph.D student,
University of Houston,
College of Natural Sciences and Mathematics,
Department of Earth and Atmospheric Scie
** [install] Error 1
***
I cannot figure out what is wrong there, can you tell me what is the
problem? Thanks a lot!
On Sat, Aug 10, 2019 at 9:58 PM yuesu jin wrote:
> Hi, all,
> I am a novice of deal.II, I begun to learn deal.II since version 9.0.1,
> after I updated it
Hi, all,
I am a novice of deal.II, I begun to learn deal.II since version 9.0.1,
after I updated it from 9.0.1 to 9.1.1, I found the executable file cannot
run, the message is:
./step-5_sec: symbol lookup error:
/home/yjin6/anaconda3/lib/libmkl_intel_lp64.so: undefined symbol:
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