Re: [petsc-dev] GAMG and custom MatMults in smoothers

On Mon, Jul 2, 2018 at 9:33 AM Vaclav Hapla wrote: > > > 2. 7. 2018 v 15:50, Matthew Knepley : > > On Mon, Jul 2, 2018 at 8:28 AM Vaclav Hapla > wrote: > >> 2. 7. 2018 v 15:05, Matthew Knepley : >> >> On Mon, Jul 2, 2018 at 7:54 AM Vaclav Hapla >

Re: [petsc-dev] GAMG and custom MatMults in smoothers

On Mon, Jul 2, 2018 at 10:19 AM Vaclav Hapla wrote: > 2. 7. 2018 v 16:38, Matthew Knepley : > > On Mon, Jul 2, 2018 at 9:33 AM Vaclav Hapla > wrote: > >> >> >> 2. 7. 2018 v 15:50, Matthew Knepley : >> >> On Mon, Jul 2, 2018 at 8:28 AM Vaclav Hapla

Re: [petsc-dev] GAMG error with MKL

On Tue, Jul 3, 2018 at 10:32 PM Jeff Hammond wrote: > > > On Tue, Jul 3, 2018 at 4:35 PM Mark Adams wrote: > >> On Tue, Jul 3, 2018 at 1:00 PM Richard Tran Mills >> wrote: >> >>> Hi Mark, >>> >>> I'm glad to see you trying out the AIJMKL stuff. I think you are the >>> first person trying to act

Re: [petsc-dev] snes/ex56 regression

On Wed, Jul 4, 2018 at 8:47 AM Mark Adams wrote: > Sorry, this error was with MKL matrices. It is still an error inside of > Plex. My non-Plex tests (KSP) now work in a branch (pushed). > Ah, I might know what this is. When you ask the DM to create a matrix, it tries to convert it to the interna

Re: [petsc-dev] GAMG error with MKL

On Wed, Jul 4, 2018 at 4:51 PM Jeff Hammond wrote: > On Wed, Jul 4, 2018 at 6:31 AM Matthew Knepley wrote: > >> On Tue, Jul 3, 2018 at 10:32 PM Jeff Hammond >> wrote: >> >>> >>> >>> On Tue, Jul 3, 2018 at 4:35 PM Mark Adams wrote: >>

Re: [petsc-dev] GAMG error with MKL

On Thu, Jul 5, 2018 at 2:04 PM Mark Adams wrote: > > > On Thu, Jul 5, 2018 at 12:41 PM Tobin Isaac wrote: > >> On Thu, Jul 05, 2018 at 09:28:16AM -0400, Mark Adams wrote: >> > > >> > > >> > > Please share the results of your experiments that prove OpenMP does >> not >> > > improve performance fo

[petsc-dev] My configure is non-working again because of CMake

Now we require a fully C++11 compliant compiler, or the CMake build dies. This is crazy. Matt -- What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead. -- Norbert Wiener https://www.cse.buf

Re: [petsc-dev] My configure is non-working again because of CMake

does not require C++11 compliant compiler? We > could downgrade to that.. > I reverted back to 3.7 which worked, so somewhere in between 3.7 and 3.11 they made the change. Thanks, Matt > Satish > > On Thu, 5 Jul 2018, Matthew Knepley wrote: > > > Now we require a f

Re: [petsc-dev] My configure is non-working again because of CMake

to: > https://bitbucket.org/petsc/petsc/commits/e5b329dd4ac > > No point in going back to having old issues.. > > Satish > > On Thu, 5 Jul 2018, Matthew Knepley wrote: > > > On Thu, Jul 5, 2018 at 5:18 PM Satish Balay wrote: > > > > > Logs? > > > &g

Re: [petsc-dev] My configure is non-working again because of CMake

he version between 3.7 and 3.11 that works on your > box? > > > > The previous update was done due to: > > https://bitbucket.org/petsc/petsc/commits/e5b329dd4ac > > > > No point in going back to having old issues.. > > > > Satish > > > > On Thu

Re: [petsc-dev] Remove legacy tests?

On Thu, Jul 5, 2018 at 5:37 PM Jed Brown wrote: > When can we delete the legacy test system? Are we currently using it > anywhere? > Not I said the fox. Matt -- What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to

Re: [petsc-dev] Remove legacy tests?

On Thu, Jul 5, 2018 at 6:07 PM Satish Balay wrote: > Ok - there is some confusion here. > > The test harness does not use targets in > examples/[tests,tutorials]/makefile. > > However we want to keep the functionality of us/users compiling > individual examples manually - without going through th

Re: [petsc-dev] My configure is non-working again because of CMake

ed. We can move back to that one if we want. Maybe at the meeting we can issue a declaration of war on CMake (or at least get Zimmerman to send a telegram to Autotools). Thanks, Matt > > Satish > > > On Thu, 5 Jul 2018, Matthew Knepley wrote: > > > On Thu, Jul

Re: [petsc-dev] GAMG error with MKL

good solutions. > > --Richard > > On Wed, Jul 4, 2018 at 11:38 PM, Smith, Barry F. > wrote: > >> >>Jed, >> >> You could use your same argument to argue PETSc should do >> "something" to help people who have (rightly or wron

Re: [petsc-dev] GAMG error with MKL

gt; > Clever ideas from anyone on this list about how to use an adequate >> number of MPI ranks for PETSc while using only a subset of these ranks for >> the MPI+OpenMP application code will be appreciated, though I don't know if >> there are any good solutions. >&

Re: [petsc-dev] GAMG error with MKL

On Mon, Jul 9, 2018 at 6:53 PM Jeff Hammond wrote: > On Mon, Jul 9, 2018 at 6:38 AM, Matthew Knepley wrote: > >> On Mon, Jul 9, 2018 at 9:34 AM Jeff Hammond >> wrote: >> >>> On Fri, Jul 6, 2018 at 4:28 PM, Smith, Barry F. >>> wrote: >>> >

Re: [petsc-dev] PetscSF and/or VecScatter with device pointers

On Thu, Jul 12, 2018 at 6:47 AM Lawrence Mitchell < lawrence.mitch...@imperial.ac.uk> wrote: > Dear petsc-dev, > > we're starting to explore (with Andreas cc'd) residual assembly on > GPUs. The question naturally arises: how to do GlobalToLocal and > LocalToGlobal. > There is not a lot of Mem Ba

Re: [petsc-dev] Reading periodic meshes from GMSH

On Thu, Jul 12, 2018 at 6:20 AM Lawrence Mitchell < lawrence.mitch...@imperial.ac.uk> wrote: > Dear petsc-dev, > > I am attempting to understand how Plex reads GMSH files with > periodicity. In particular, what happens to the coordinate localisation. > Stefano wrote this so he will have to help.

Re: [petsc-dev] Reading periodic meshes from GMSH

On Thu, Jul 12, 2018 at 10:00 AM Lawrence Mitchell < lawrence.mitch...@imperial.ac.uk> wrote: > > > On 12 Jul 2018, at 12:27, Stefano Zampini > wrote: > > > > Lawrence, > > > > I wrote the periodic GMSH reader and I can answer for it. > > > > With DMPlex, when we have periodicity, we currently ha

Re: [petsc-dev] PETSc blame digest (next) 2018-07-16

On Mon, Jul 16, 2018 at 11:38 AM Fande Kong wrote: > Hi Satish and Barry, > > Any way to reproduce these warnings? I just tried the same configure > script on my desktop, and I did NOT see any warning. > You would need the same compiler/options. Is it not clear why they happen? Matt > Fand

Re: [petsc-dev] Should we replace hypre PILUT with hypre Euclid?

On Tue, Jul 17, 2018 at 2:55 PM Jed Brown wrote: > PETSc had a Euclid interface until Barry removed it. > > > https://bitbucket.org/petsc/petsc/commits/22b6d1ca80e4f79123036fb6afd7eb4463b3692a > > See also > > https://www.mail-archive.com/petsc-users@mcs.anl.gov/msg33196.html I would also add t

Re: [petsc-dev] PETSc blame digest (next-tmp) 2018-07-20

On Fri, Jul 20, 2018 at 4:28 PM PETSc checkBuilds < petsc-checkbui...@mcs.anl.gov> wrote: > > > Dear PETSc developer, > > This email contains listings of contributions attributed to you by > `git blame` that caused compiler errors or warnings in PETSc automated > testing. Follow the links to see

Re: [petsc-dev] Bad scaling of GAMG in FieldSplit

On Thu, Jul 26, 2018 at 12:56 PM Fande Kong wrote: > > > On Thu, Jul 26, 2018 at 10:35 AM, Junchao Zhang > wrote: > >> On Thu, Jul 26, 2018 at 11:15 AM, Fande Kong wrote: >> >>> >>> >>> On Thu, Jul 26, 2018 at 9:51 AM, Junchao Zhang >>> wrote: >>> Hi, Pierre, From your log_view fil

Re: [petsc-dev] Bad scaling of GAMG in FieldSplit

On Thu, Jul 26, 2018 at 2:43 PM Jed Brown wrote: > Matthew Knepley writes: > > > On Thu, Jul 26, 2018 at 12:56 PM Fande Kong wrote: > > > >> > >> > >> On Thu, Jul 26, 2018 at 10:35 AM, Junchao Zhang > >> wrote: > >&

Re: [petsc-dev] Petsc 19 conflict calendar

On Tue, Aug 7, 2018 at 12:24 PM Tobin Isaac wrote: > > Hi all, > > If you subscribe to petsc-dev, you might be interested in getting in > on the ground floor of planning our Summer 2019 meeting in Atlanta. > > It would be good to get a list of conflicts for June-ish. We've just > found out, for

Re: [petsc-dev] any script to extract data from "-log_view"?

On Wed, Aug 8, 2018 at 7:23 PM Fande Kong wrote: > Hi all, > > If we are going to do a scaling study, can we automatically make a plot > based on a bunch of output files (from -log_view)? It is a big pain to > manually copy data if we have a lot of output files. > I use -log_view :run1.py:asc

Re: [petsc-dev] How to enforce private data/methods in PETSc?

On Fri, Aug 10, 2018 at 5:43 PM Junchao Zhang wrote: > I met several bugs that remind me to raise this question. In PETSc, > object of type A can arbitrarily access object of type B's data. But > designer of B may later change the meaning of its data (and of course, > update B's interfaces, whic

Re: [petsc-dev] Petsc 19 directly after SC 19 PC?

On Fri, Aug 10, 2018 at 8:16 PM Tobin Isaac wrote: > In another thread it came up that the SC'19 planning committee meeting > June 3-4 is actually in Atlanta, too. I've checked and there are plenty of > options on campus for a meeting of our size that I can reserve for the > second half of the w

Re: [petsc-dev] How to enforce private data/methods in PETSc?

ctions break the rules. Matt > --Junchao Zhang > > > On Fri, Aug 10, 2018 at 9:43 PM Matthew Knepley wrote: > >> On Fri, Aug 10, 2018 at 5:43 PM Junchao Zhang >> wrote: >> >>> I met several bugs that remind me to raise this question. In PETSc, >&

Re: [petsc-dev] How to enforce private data/methods in PETSc?

pages/Sys/PetscMalloc4.html#PetscMalloc4>(B->cmap->N*from->starts[from->n],&contents->rvalues,412: >B->cmap->N*to->starts[to->n],&contents->svalues,413: > from->n,&contents->rwaits,414:

Re: [petsc-dev] IS block size meaning

On Tue, Aug 14, 2018 at 5:32 AM Vaclav Hapla wrote: > Hello > > I would like to move the discussion from the PR > https://bitbucket.org/petsc/petsc/pull-requests/1076/fix-issetblocksize_general > because > it's quite a general concern. > > It's about the meaning of block size for IS. > > Barry t

Re: [petsc-dev] Undefined symbols for _kspfgmresmodifypcksp_ and _kspfgmresmodifypcnochange_ when rebuilding

On Wed, Aug 22, 2018 at 6:35 AM Lawrence Mitchell wrote: > > > On 22 Aug 2018, at 10:04, Patrick Sanan wrote: > > > > This happens fairly frequently when I try to switch/update branches of > PETSc (here invoked by building my own code, but the error message looks > the same with "make check"): >

Re: [petsc-dev] public functions with no manual pages

Fixed. Matt On Wed, Aug 22, 2018 at 4:15 PM Smith, Barry F. wrote: > > DMSNESCheckFromOptions() > > DMTSCheckFromOptions() > -- What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead. -- N

Re: [petsc-dev] Gathering information: types of interpolations in PETSc and which ones are supported?

On Fri, Aug 31, 2018 at 2:20 PM Smith, Barry F. wrote: > > PETSc developers, > >There are a variety of "interpolation" modules in PETSc but the > documentation is scattered (mostly missing). Could everyone who knows > anything about the various modules provide a little information abo

Re: [petsc-dev] Gathering information: types of interpolations in PETSc and which ones are supported?

On Fri, Aug 31, 2018 at 4:11 PM Smith, Barry F. wrote: > > On Aug 31, 2018, at 2:52 PM, Matthew Knepley wrote: > > > > On Fri, Aug 31, 2018 at 2:20 PM Smith, Barry F. > wrote: > > > > PETSc developers, > > > >There are a variet

Re: [petsc-dev] Compiling PETsc against openblas on Linux

On Sun, Sep 2, 2018 at 11:11 AM Antonio wrote: > --with-blas-lapack-lib=-lopenblas --known-64-bit-blas-indices=0 > I am curious why you are giving the 64-bit option. This should be figured automatically unless you cannot executable programs on the platform on which you are configuring. What goe

Re: [petsc-dev] PETSc - MPI3 functionality

On Sat, Sep 8, 2018 at 4:43 AM Tamara Dancheva wrote: > Hi Barry, > > I see the issue.. > > In the FEM library and solver that I am working on, PETSc is used all > throughout for the data distribution, synchronization of functions, > assembly. There is another UPC alternation of using the JANPAC

Re: [petsc-dev] MATLMVM

On Tue, Sep 11, 2018 at 9:47 AM Dener, Alp wrote: > 1 base type and 8 subtypes. If there’s a better convention/structure to do > this in PETSc, I’d be happy to get a refactoring done ASAP this week so > that it’s cleaner in the release. > I guess what Lisandro is asking is, what backend differen

Re: [petsc-dev] TSBASICSYMPLECTIC

On Tue, Sep 11, 2018 at 10:32 AM Zhang, Hong wrote: > A few related discussions can be found at > https://bitbucket.org/petsc/petsc/pull-requests/1108/rename-bsi-to-symplectic/diff > > In addition, what we have in PETSc now is "Basic Symplectic Integrators" > as introduced in Ernst Hairer's artic

Re: [petsc-dev] TSBASICSYMPLECTIC

On Tue, Sep 11, 2018 at 11:53 AM Jed Brown wrote: > Matthew Knepley writes: > > > On Tue, Sep 11, 2018 at 10:32 AM Zhang, Hong wrote: > > > >> A few related discussions can be found at > >> > https://bitbucket.org/petsc/petsc/pull-requests/1108/ren

Re: [petsc-dev] Add dependency to configure

On Wed, Sep 19, 2018 at 6:22 AM Marek Pecha wrote: > Hello, > > I work on clustering framework uses PETSc. Basically, I would like to use > this framework for segmentation images. So, I had idea - implement viewer > for loading images (JPEG,TIFF, etc) into PETSc. For this purpose, I would > like

Re: [petsc-dev] Can MATAIJ support block size?

On Thu, Sep 20, 2018 at 1:26 PM Fande Kong wrote: > Hi Developers, > > MATBAIJ actually assumes that the point-block is dense. It is fine if the > block size is small for example less than 50, but we may suffer from a > memory issue if the block is large such as 1000. The block is not necessary >

[petsc-dev] Test output broken for test sets

At least on my machine, this does not work correctly testset: nsize: {{1 2 4}} args: -use_generator -faces {{2,2,2 1,3,5 3,4,7}} args: -interpolate -distribute -interpolate_after_distribute {{0 1}} args: -dm_plex_check_pointsf test: #TODO some combinations generate wr

Re: [petsc-dev] DM not propagating into Fieldsplit when using external DMShell?

On Mon, Sep 24, 2018 at 2:48 PM Boris Boutkov wrote: > Hello all, > > I am trying to solve a Stokes type problem using PETSc's Fieldsplit > infrastructure while providing external GMG information coming from libMesh > and am running into issues when using the two simultaneously. > > I have verifi

Re: [petsc-dev] Test output broken for test sets

_6_tet.out > > not found. > Warning: > /Users/kruger/ptroot/upstream/petsc/src/sys/examples/tests/output/ex1_faces-2__2__2_6_tet.out > > not found. > > > Is this what you really want? > > Scott > > P.S. Jakub: Your issue is separate. I'll have a fix pu

Re: [petsc-dev] No LocalToGlobalMapping in DMPlex

On Fri, Oct 5, 2018 at 2:58 PM Tristan Konolige < tristan.konol...@colorado.edu> wrote: > Hello PETSc Developers, > > I’d like to get an ISLocalToGlobalMapping from a DMPlex. But, > currently, DMGetLocalToGlobalMapping returns an empty > ISLocalToGlobalMapping. I can see that ISLocalToGlobalMappin

Re: [petsc-dev] MUMPS silent errors

On Wed, Oct 10, 2018 at 3:12 PM Zhang, Junchao wrote: > I met a case where MUMPS numeric factorization returned an error code -9 in > mumps->id.INFOG(1) but A->erroriffailure was false in the following code in > mumps.c > > 1199: *PetscErrorCode >

Re: [petsc-dev] Question on extracting submatrixes from global projection when using FS + external DMShell + MG

On Wed, Oct 10, 2018 at 12:23 PM Boris Boutkov wrote: > Hello again all, > > I've been trying to get GMG+FS to work with an external DMShell provided > by libMesh, see for reference > https://www.mail-archive.com/petsc-dev@mcs.anl.gov/msg23497.html . > > The situation is that while I've managed t

Re: [petsc-dev] Question on extracting submatrixes from global projection when using FS + external DMShell + MG

Matt > Thanks again for the help, > - Boris > > > > On Wed, Oct 10, 2018 at 8:21 PM Matthew Knepley wrote: > >> On Wed, Oct 10, 2018 at 12:23 PM Boris Boutkov >> wrote: >> >>> Hello again all, >>> >>> I've been tryin

Re: [petsc-dev] PETSc OpenMPI library test interminable

On Mon, Oct 15, 2018 at 6:21 AM Antonio Trande wrote: > Hi all. > > PETSc-3.10.2 compiled with OpenMPI-2.1.5 on Fedora 30 (devel branch) (or > with OpenMPI-2.1.1 on Fedora 28), on x86 architectures only: > This looks like an OpenMPI bug. Does it work with MPICH? Thanks, Matt > the 'sr

Re: [petsc-dev] PETSc OpenMPI library test interminable

On Tue, Oct 16, 2018 at 5:30 AM Antonio Trande wrote: > > This looks like an OpenMPI bug. Does it work with MPICH? > > > > Thanks, > > > > Matt > > Yes, it works with MPICH. > Did you report this to OpenMPI? They are usually good with using PETSc to reproduce. Thanks, Matt > -- >

Re: [petsc-dev] PETSc OpenMPI library test interminable

On Tue, Oct 16, 2018 at 12:49 PM Antonio wrote: > > > On 16/10/18 12:07, Matthew Knepley wrote: > > On Tue, Oct 16, 2018 at 5:30 AM Antonio Trande > <mailto:anto.tra...@gmail.com>> wrote: > > > > > This looks like an OpenMPI bug. Does it wo

Re: [petsc-dev] --download and spack

On Sat, Oct 20, 2018 at 11:47 PM Jed Brown wrote: > We're currently maintaining a (somewhat clumsy and limited, albeit > functional) package manager in the form of the --download functionality. > What do people think of outsourcing this to Spack, which would handle > dependency resolution and rep

[petsc-dev] I just removed Fortran support from my development build

Jenkins will now catch bad Fortran bindings. However, this is a larger problem. GFortran takes forever to build the bindings. Is it similar for other compilers? Matt -- What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results

Re: [petsc-dev] I just removed Fortran support from my development build

On Mon, Oct 22, 2018 at 10:58 AM Dener, Alp wrote: > > > On Oct 22, 2018, at 8:18 AM, Matthew Knepley wrote: > > Jenkins will now catch bad Fortran bindings. However, this is a larger > problem. GFortran takes forever to build the bindings. Is it similar for > other c

Re: [petsc-dev] Testing for deprecated MKL functions?

On Tue, Oct 23, 2018 at 2:20 PM Mills, Richard Tran wrote: > Barry, Satish, and others, > > In MKL 2018 update 2, the old, non-inspector executor sparse BLAS > interfaces were deprecated in favor of the newer, inspector-executor > versions. To keep lots of warnings from being generated, I put in

Re: [petsc-dev] plex test 26 failing for complex

On Wed, Oct 24, 2018 at 9:54 AM Hapla Vaclav wrote: > Tests dm_impls_plex_tests-ex26% fail for exodusii+complex build. > > E.g. > not ok dm_impls_plex_tests-ex26_15 > # [0]PETSC ERROR: - Error Message > -- > #

[petsc-dev] Problem with DMKSP/DMSNES and GMG

I am having a problem, and every solution I can think of would seem to do violence to encapsulation or to DMKSP/DMSNES. I want to have GMG automatically work on the velocity part of Stokes. So I give -fieldsplit_velocity_pc_type mg in SNES ex62. This complains that the KSP has a DM but KSPSetC

Re: [petsc-dev] Problem with DMKSP/DMSNES and GMG

On Fri, Oct 26, 2018 at 11:06 AM Jed Brown wrote: > Matthew Knepley writes: > > > I am having a problem, and every solution I can think of would seem to do > > violence to encapsulation or to DMKSP/DMSNES. > > > > I want to have GMG automatically work on the v

Re: [petsc-dev] Problem with DMKSP/DMSNES and GMG

On Fri, Oct 26, 2018 at 11:24 AM Jed Brown wrote: > Matthew Knepley writes: > > > On Fri, Oct 26, 2018 at 11:06 AM Jed Brown wrote: > > > >> Matthew Knepley writes: > >> > >> > I am having a problem, and every solution I can think of would see

Re: [petsc-dev] Problem with DMKSP/DMSNES and GMG

On Fri, Oct 26, 2018 at 12:13 PM Jed Brown wrote: > Matthew Knepley writes: > > > On Fri, Oct 26, 2018 at 11:24 AM Jed Brown wrote: > > > >> Matthew Knepley writes: > >> > >> > On Fri, Oct 26, 2018 at 11:06 AM Jed Brown wrote: > >>

Re: [petsc-dev] error with --download-amgx

Could you have run out of disk space? /usr/bin/ranlib: libamgx_base.a: Input/output error gmake[2]: *** [base/libamgx_base.a] Error 1 gmake[2]: *** Deleting file `base/libamgx_base.a' gmake[1]: *** [base/CMakeFiles/amgx_base.dir/all] Error 2 gmake: *** [all] Error 2 Matt On Tue, Dec 3, 2019 a

[petsc-dev] Valgrind problems

I am trying to clean up valgrind errors. However this one dm_impls_plex_tests-ex1_fluent_2 is valgrind clean on my machine. Does anyone get it to output something? Thanks, Matt -- What most experimenters take for granted before they begin their experiments is infinitely more interest

Re: [petsc-dev] Valgrind problems

e. > I wonder if it was a not updating master thing: https://gitlab.com/petsc/petsc/-/jobs/372455942 Thanks, Matt >Thanks > > > > On Dec 7, 2019, at 2:45 PM, Matthew Knepley wrote: > > > > I am trying to clean up valgrind errors. However this

Re: [petsc-dev] Valgrind problems

gt; ==4990==by 0x588492F: DMPlexCreateFluentFromFile (plexfluent.c:30) > ==4990==by 0x577E2B7: DMPlexCreateFromFile (plexcreate.c:3254) > ==4990==by 0x10BEDF: CreateMesh (ex1.c:170) > ==4990==by 0x10A20B: main (ex1.c:430) > ==4990== Uninitialised value was created by a stack

Re: [petsc-dev] Valgrind problems

; > ==4990==by 0x588147D: DMPlexCreateFluent_ReadSection > (plexfluent.c:105) > > ==4990==by 0x5882E3A: DMPlexCreateFluent (plexfluent.c:246) > > ==4990==by 0x588492F: DMPlexCreateFluentFromFile (plexfluent.c:30) > > ==4990==by 0x577E2B7: DMPlexCreateFromFile (plex

[petsc-dev] Testing a new configure addition

How do I test a new package added to configure? Thanks, Matt -- What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead. -- Norbert Wiener https://www.cse.buffalo.edu/~knepley/

Re: [petsc-dev] Testing a new configure addition

tests configure > scripts are best updated in the same branch/MR > Thanks! Matt > Satish > > On Thu, 19 Dec 2019, Matthew Knepley wrote: > > > How do I test a new package added to configure? > > > > Thanks, > > > > Matt > > > >

[petsc-dev] Failure in Master

Does anyone else see this? not ok diff-ts_tutorials_power_grid-ex9opt_2 # Error code: 1 5631 TEST arch-ci-mswin-uni/tests/counts/ts_tutorials-ex18_adv_delta_yper_fim_0.counts 5632 # 4c4 5633 # < Testing hand-coded Gradient, if (for double precision runs) ||G - Gfd||_F/||G||_F is 5634 # -

Re: [petsc-dev] Bash tool for handling switching between multiple PETSc branches and configures

On Fri, Jan 3, 2020 at 3:52 PM Smith, Barry F. wrote: > >A long time ago Oana suggested a tool that allowed switching between > PETSc configurations after pulls etc that didn't require waiting to > recompile code or rerun configure. Based on her ideas I finally got > something that has been b

Re: [petsc-dev] Bash tool for handling switching between multiple PETSc branches and configures

> I didn't realize there were any active developers not using ccache. We > should add a note to the manual. > > > > On Jan 3, 2020 15:04, "Smith, Barry F." wrote: > > > > > > > On Jan 3, 2020, at 3:07 PM, Matthew Knepley > wrote: >

[petsc-dev] Weird errors with enum in 64-bit ints

I have some unexplainable errors with 64-bit ints in this branch: https://gitlab.com/petsc/petsc/-/jobs/400852717 from https://gitlab.com/petsc/petsc/pipelines/108833203 I have built my own 64-bit arches, and the one compiled with new gcc works fine and is valgrind clean. With the bad old A

Re: [petsc-dev] Weird errors with enum in 64-bit ints

NL disabled my login. Matt > Barry > > > > On Jan 13, 2020, at 3:52 AM, Matthew Knepley wrote: > > > > I have some unexplainable errors with 64-bit ints in this branch: > > > > https://gitlab.com/petsc/petsc/-/jobs/400852717 > > > > from >

Re: [petsc-dev] ccache tips?

I configured MPI with CC="ccache gcc" knepley/feature-dm-remove-hybrid *$:/PETSc3/petsc/petsc-dev$ /PETSc3/petsc/bin/mpicc -show /Users/knepley/MacSoftware/bin/ccache gcc -Qunused-arguments -fstack-protector -Qunused-arguments -g3 -Wl,-flat_namespace -I/PETSc3/petsc/include -L/PETSc3/petsc/lib -lp

Re: [petsc-dev] how do see artifacts?

Try Firefox or Chrome? Matt On Sun, Jan 19, 2020 at 11:41 PM Smith, Barry F. via petsc-dev < petsc-dev@mcs.anl.gov> wrote: > > > > On Jan 19, 2020, at 10:39 PM, Jed Brown wrote: > > > > "Smith, Barry F. via petsc-dev" writes: > > > >> I have no left hand side. > > > > Right hand side? I c

Re: [petsc-dev] Issue with dependency generation in GCC 9

On Mon, Jan 20, 2020 at 3:06 AM Lisandro Dalcin wrote: > I'm using GCC 9 from Fedora 31. A few things have changed regarding > dependency generation, and things are now broken for PETSc. I do not have a > clean solution to propose. > > The problem is the way targets are emitted : > > $ head -n 3

Re: [petsc-dev] Issue with dependency generation in GCC 9

On Mon, Jan 20, 2020 at 7:06 AM Lisandro Dalcin wrote: > On Mon, 20 Jan 2020 at 14:14, Matthew Knepley wrote: > >> On Mon, Jan 20, 2020 at 3:06 AM Lisandro Dalcin >> wrote: >> >>> I'm using GCC 9 from Fedora 31. A few things have changed regarding >>

Re: [petsc-dev] Issue with dependency generation in GCC 9

On Mon, Jan 20, 2020 at 7:22 AM Matthew Knepley wrote: > On Mon, Jan 20, 2020 at 7:06 AM Lisandro Dalcin wrote: > >> On Mon, 20 Jan 2020 at 14:14, Matthew Knepley wrote: >> >>> On Mon, Jan 20, 2020 at 3:06 AM Lisandro Dalcin >>> wrote: >>> >

Re: [petsc-dev] Issue with dependency generation in GCC 9

On Mon, Jan 20, 2020 at 9:58 AM Lisandro Dalcin wrote: > On Mon, 20 Jan 2020 at 17:07, Jed Brown wrote: > >> From my man page (contradicting the behavior Lisandro observed): >> >>-MD -MD is equivalent to -M -MF file, except that -E is not implied. >> The driver >>determines file base

Re: [petsc-dev] Best DM For Structured Atom Layers

On Tue, Jan 28, 2020 at 2:32 PM Jacob Faibussowitsch wrote: > Hello All, > > I am currently working on rewriting an existing code into PETSc. This > particular code performs tight binding and works on a tiled hexagonal > carbon lattice as a mesh. I am wondering what the best DM format is to > rep

Re: [petsc-dev] Fwd: [SIAM-CSE] Introducing hIPPYlib, a python-based inverse problems solver library

Yes. I had a discussion with Noemi about using it with PETSc. The big requirement is formulating the discretization in FEniCS. I think it might be possible to peel back one layer of interface and use it directly. Once I find the right student, I will have them investigate. There are some very nice

Re: [petsc-dev] First call to cudaMalloc or cudaFree is very slow on summit

On Fri, Feb 7, 2020 at 1:23 PM Zhang, Hong via petsc-dev < petsc-dev@mcs.anl.gov> wrote: > Hi all, > > Previously I have noticed that the first call to a CUDA function such as > cudaMalloc and cudaFree in PETSc takes a long time (7.5 seconds) on summit. > Then I prepared a simple example as attach

Re: [petsc-dev] First call to cudaMalloc or cudaFree is very slow on summit

On Sat, Feb 8, 2020 at 4:34 PM Zhang, Hong via petsc-dev < petsc-dev@mcs.anl.gov> wrote: > I did some further investigation. The overhead persists for both the PETSc > shared library and the static library. In the previous example, it does not > call any PETSc function, the first CUDA function bec

Re: [petsc-dev] DMPlex + P_1 FE interpolation

On Sun, Feb 9, 2020 at 3:23 PM Pierre Jolivet wrote: > Hello, > I’ve a hard time answering the following DMPlex questions by just looking > at some of the examples and manual. > Considering two DMPlex dm and dma, as in > petsc/src/dm/impls/plex/examples/tests/ex19.c, I’d like to interpolate a > s

Re: [petsc-dev] DMPlex + P_1 FE interpolation

On Sun, Feb 9, 2020 at 11:11 PM Pierre Jolivet wrote: > > > On 10 Feb 2020, at 6:20 AM, Matthew Knepley wrote: > > On Sun, Feb 9, 2020 at 3:23 PM Pierre Jolivet > wrote: > >> Hello, >> I’ve a hard time answering the following DMPlex questions by just looki

Re: [petsc-dev] DMPlex + P_1 FE interpolation

On Mon, Feb 10, 2020 at 5:08 AM Dave May wrote: > > > On Mon 10. Feb 2020 at 13:09, Matthew Knepley wrote: > >> On Sun, Feb 9, 2020 at 11:11 PM Pierre Jolivet < >> pierre.joli...@enseeiht.fr> wrote: >> >>> >>> >>> On 10 Feb 2020,

Re: [petsc-dev] DMPlex + P_1 FE interpolation

On Mon, Feb 10, 2020 at 5:31 AM Dave May wrote: > > > On Mon 10. Feb 2020 at 14:17, Matthew Knepley wrote: > >> On Mon, Feb 10, 2020 at 5:08 AM Dave May wrote: >> >>> >>> >>> On Mon 10. Feb 2020 at 13:09, Matthew Knepley wrote: >

Re: [petsc-dev] DMPlex + P_1 FE interpolation

On Mon, Feb 10, 2020 at 6:49 AM Pierre Jolivet wrote: > > > On 10 Feb 2020, at 1:08 PM, Matthew Knepley wrote: > > On Sun, Feb 9, 2020 at 11:11 PM Pierre Jolivet > wrote: > >> >> >> On 10 Feb 2020, at 6:20 AM, Matthew Knepley wrote: >> >

Re: [petsc-dev] First call to cudaMalloc or cudaFree is very slow on summit

2020, at 11:14 AM, Smith, Barry F. wrote: > > > gprof or some similar tool? > > > On Feb 10, 2020, at 11:18 AM, Zhang, Hong via petsc-dev < > petsc-dev@mcs.anl.gov> wrote: > > -cuda_initialize 0 does not make any difference. Actually this issue has > nothin

Re: [petsc-dev] First call to cudaMalloc or cudaFree is very slow on summit

On Wed, Feb 12, 2020 at 11:38 AM Zhang, Hong wrote: > > > On Feb 12, 2020, at 11:09 AM, Matthew Knepley wrote: > > On Wed, Feb 12, 2020 at 11:06 AM Zhang, Hong via petsc-dev < > petsc-dev@mcs.anl.gov> wrote: > >> Sorry for the long post. Here are replies I have

Re: [petsc-dev] DMPlex + P_1 FE interpolation

oking at the > wrong place and overcomplicating all this? > I think you may be. I am still trying to understand what you want to do. Thanks, Matt > Thank you in advance for your help, > Pierre > > On 10 Feb 2020, at 4:30 PM, Matthew Knepley wrote: > > On Mon, Feb 1

Re: [petsc-dev] Proper matrix size to choose when evaluating MatMult?

I think Karl goes into these issues here: https://arxiv.org/pdf/1410.4054.pdf Thanks, Matt On Fri, Feb 21, 2020 at 5:58 PM Junchao Zhang via petsc-dev < petsc-dev@mcs.anl.gov> wrote: > > > On Fri, Feb 21, 2020 at 4:38 PM Mark Adams wrote: > >> >> >> On Fri, Feb 21, 2020 at 4:51 PM Juncha

Re: [petsc-dev] Exodus viewer

On Tue, Feb 25, 2020 at 10:44 AM Blaise A Bourdin wrote: > Hi, > > I just noticed recent changes to the exodus I/O and a new exodus viewer, > which had been on my todo list forever… > Is there a test or example available? Is there anything that remains I > could help with? > I know! It was on mi

Re: [petsc-dev] Unions of IS and MatNest

On Thu, Mar 12, 2020 at 5:59 PM Jed Brown wrote: > Pierre Jolivet writes: > > > Hello, > > Has there been any follow-up on this > https://lists.mcs.anl.gov/pipermail/petsc-users/2015-January/024020.html < > https://lists.mcs.anl.gov/pipermail/petsc-users/2015-January/024020.html>? > > Given a 3x

Re: [petsc-dev] Unions of IS and MatNest

On Fri, Mar 13, 2020 at 3:19 AM Pierre Jolivet wrote: > > > On 12 Mar 2020, at 11:40 PM, Matthew Knepley wrote: > > On Thu, Mar 12, 2020 at 5:59 PM Jed Brown wrote: > >> Pierre Jolivet writes: >> >> > Hello, >> > Has there been any follow-u

Re: [petsc-dev] Unions of IS and MatNest

On Fri, Mar 13, 2020 at 11:20 AM Pierre Jolivet wrote: > > > On 13 Mar 2020, at 2:36 PM, Matthew Knepley wrote: > > On Fri, Mar 13, 2020 at 3:19 AM Pierre Jolivet > wrote: > >> >> >> On 12 Mar 2020, at 11:40 PM, Matthew Knepley wrote: >> >&g

Re: [petsc-dev] print statements in fortran interface functions

On different OSes, the buffering for printf is different. Do you mean that the program ends correctly and prints nothing, or do you mean that you execute a print but nothing immediately outputs to the screen. We do not explicitly flush, so it could be that this weird OS is buffering in a way you do

Re: [petsc-dev] MatCreateVecs from Fortran problem

On Tue, Mar 17, 2020 at 1:34 PM Mark Adams wrote: > Our code broke in moving from v3.7 to current. The problem seems to be in > MatCreateVecs > > Our code has: > > Vec::XVec > Vec::BVec > > this%xVec2 = PETSC_NULL_VEC > this%bVec2 = PETSC_NULL_VEC > Passing NULL to MatCreateVecs() means th

Re: [petsc-dev] MatCreateVecs from Fortran problem

On Tue, Mar 17, 2020 at 2:16 PM Mark Adams wrote: > > >> Passing NULL to MatCreateVecs() means that you do not want a vector out: >> >> > Yes, I want both vectors out and we pass it Vec that have been initialized > with PETSC_NULL_VEC > That is wrong. > > >> >> https://www.mcs.anl.gov/petsc/pe

Re: [petsc-dev] MatCreateVecs from Fortran problem

On Tue, Mar 17, 2020 at 2:48 PM Mark Adams wrote: > > > On Tue, Mar 17, 2020 at 2:25 PM Matthew Knepley wrote: > >> On Tue, Mar 17, 2020 at 2:16 PM Mark Adams wrote: >> >>> >>> >>>> Passing NULL to MatCreateVecs() means that you do not wan

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