Re: [petsc-users] "-ts_exact_final_time matchstep" leads to DIVERGED_STEP_REJECTED

Barry Smith Fri, 13 Dec 2024 11:22:43 -0800

Hm, what is the final time you are stepping towards in this run?

There is something wrong with the adapt code since it seems to start with a dt of 0 but then tries "adapting" several times, but it could be the

monitor function does not correctly format numbers smaller than 1.e-12 and it is just using truly small dt.

Jed, Hong, Emil?

Barry

On Dec 10, 2024, at 11:08 AM, Blondel, Sophie <sblon...@utk.edu> wrote:

Good morning Barry,

Attached are the updated files, there is more useful information in them.

Cheers,

Sophie
From: Blondel, Sophie via Xolotl-psi-development <xolotl-psi-developm...@lists.sourceforge.net>
Sent: Monday, December 9, 2024 17:29
To: Barry Smith <bsm...@petsc.dev>
Cc: petsc-users@mcs.anl.gov <petsc-users@mcs.anl.gov>; xolotl-psi-developm...@lists.sourceforge.net <xolotl-psi-developm...@lists.sourceforge.net>
Subject: Re: [Xolotl-psi-development] [petsc-users] "-ts_exact_final_time matchstep" leads to DIVERGED_STEP_REJECTED

Hi Barry,

I hope you are doing well.

Attached are the output. To give a little more context, this is a "new" way of running the code where multiple instances are created and communicate together every few time steps (like coupling the code with itself in memory). Here there are 3 instances that each have a separate TS object, plus one "main" instance that doesn't solve anything but compute rates to exchange between the other instances.

Cheers,

Sophie
From: Barry Smith <bsm...@petsc.dev>
Sent: Monday, December 9, 2024 15:12
To: Blondel, Sophie <sblon...@utk.edu>
Cc: petsc-users@mcs.anl.gov <petsc-users@mcs.anl.gov>; xolotl-psi-developm...@lists.sourceforge.net <xolotl-psi-developm...@lists.sourceforge.net>
Subject: Re: [petsc-users] "-ts_exact_final_time matchstep" leads to DIVERGED_STEP_REJECTED

On Dec 9, 2024, at 2:56 PM, Blondel, Sophie via petsc-users <petsc-users@mcs.anl.gov> wrote:

Hi,

I am trying to understand a strange behavior I'm encountering: when running my application with "-ts_exact_final_time stepover" everything goes well, but when I switch to "matchstep" I get DIVERGED_STEP_REJECTED before the first time step is finished.

This is in the very first time-step in TSSolve?

Please run with -ts_monitor and send all the output (best for a short time interval and do it twice once with -ts_exact_final_time stepover and once with exact.

Barry

I tried increasing the maximum number of rejections and it just takes longer to diverge, and if I set the value to "unlimited" it is basically an infinite loop.

Is there a way to check why is the step rejected? Could the "matchstep" option change tolerances somewhere that would cause that behavior?

Let me know if I should provide more information.

Best,

Sophie Blondel

[sophie-Precision-3580:86913] shmem: mmap: an error occurred while determining 
whether or not 
/tmp/ompi.sophie-Precision-3580.1000/jf.0/3920101376/shared_mem_cuda_pool.sophie-Precision-3580
 could be created.
[sophie-Precision-3580:86913] create_and_attach: unable to create shared memory 
BTL coordinating structure :: size 134217728 
Starting Xolotl (3.0.1-39-fdde1002)
Tue Dec 10 11:02:51 2024
NetworkHandler: Loaded network of 2066 DOF with: Vacancy Basal Interstitial 
MaterialHandler: The selected material is: AlphaZr with the following 
processes: noSolve reaction sink 
TemperatureHandler: Using the time profile defined in: temp.txt
Starting Xolotl (3.0.1-39-fdde1002)
Tue Dec 10 11:02:52 2024
NetworkHandler: Loaded network of 660 DOF with: Vacancy Basal Interstitial 
MaterialHandler: The selected material is: AlphaZr with the following 
processes: constant reaction sink 
TemperatureHandler: Using the time profile defined in: temp.txt
Starting Xolotl (3.0.1-39-fdde1002)
Tue Dec 10 11:02:52 2024
NetworkHandler: Loaded network of 668 DOF with: Vacancy Basal Interstitial 
MaterialHandler: The selected material is: AlphaZr with the following 
processes: constant reaction sink 
TemperatureHandler: Using the time profile defined in: temp.txt
Starting Xolotl (3.0.1-39-fdde1002)
Tue Dec 10 11:02:52 2024
NetworkHandler: Loaded network of 738 DOF with: Vacancy Basal Interstitial 
MaterialHandler: The selected material is: AlphaZr with the following 
processes: constant reaction sink 
TemperatureHandler: Using the time profile defined in: temp.txt
MultiXolotl: Restart file written to: xolotlRestart.txt
SolverHandler: 0D simulation
SolverHandler: 0D simulation
SolverHandler: 0D simulation
0 TS dt 0. time 0.
0 TS dt 0. time 0.
0 TS dt 0. time 0.
0 TS dt 0. time 0.
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
0 TS dt 0. time 0.
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
0 TS dt 0. time 0.
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
      TSAdapt basic step   0 stage rejected (SNES reason DIVERGED_FNORM_NAN) 
t=0          + 0.000e+00 retrying with dt=0.000e+00 
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: TSStep has failed due to DIVERGED_STEP_REJECTED
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 TSStep() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:3416
[0]PETSC ERROR: #2 TSSolve() at 
/home/sophie/Code/petsc/src/ts/interface/ts.c:4049
[0]PETSC ERROR: #3 solve() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:380
[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: Invalid argument
[0]PETSC ERROR: You are destroying an option that has been used with 
PetscOptionsPush() but does not have a corresponding PetscOptionsPop()
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 PetscOptionsDestroy() at 
/home/sophie/Code/petsc/src/sys/objects/options.c:178
[0]PETSC ERROR: #2 finalize() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:484


[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: Invalid argument
[0]PETSC ERROR: You are destroying an option that has been used with 
PetscOptionsPush() but does not have a corresponding PetscOptionsPop()
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 PetscOptionsDestroy() at 
/home/sophie/Code/petsc/src/sys/objects/options.c:178
[0]PETSC ERROR: #2 finalize() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:484

[0]PETSC ERROR: --------------------- Error Message 
--------------------------------------------------------------
[0]PETSC ERROR:   It appears a new error in the code was triggered after a 
previous error, possibly because:
[0]PETSC ERROR:   -  The first error was not properly handled via (for example) 
the use of
[0]PETSC ERROR:      PetscCall(TheFunctionThatErrors()); or
[0]PETSC ERROR:   -  The second error was triggered while handling the first 
error.
[0]PETSC ERROR:   Above is the traceback for the previous unhandled error, 
below the traceback for the next error
[0]PETSC ERROR:   ALL ERRORS in the PETSc libraries are fatal, you should add 
the appropriate error checking to the code
[0]PETSC ERROR: Invalid argument
[0]PETSC ERROR: You are destroying an option that has been used with 
PetscOptionsPush() but does not have a corresponding PetscOptionsPop()
[0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program 
crashed before usage or a spelling mistake, etc!
[0]PETSC ERROR:   Option left: name:-fieldsplit_0_pc_type value: sor source: 
code
[0]PETSC ERROR:   Option left: name:-fieldsplit_1_pc_type value: redundant 
source: code
[0]PETSC ERROR:   Option left: name:-pc_fieldsplit_detect_coupling (no value) 
source: code
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.21.4-378-g9ca9edede9e  GIT 
Date: 2024-08-01 13:52:28 +0000
[0]PETSC ERROR: Unknown Name with 1 MPI process(es) and PETSC_ARCH  on 
sophie-Precision-3580 by sophie Tue Dec 10 11:02:51 2024
[0]PETSC ERROR: Configure options: PETSC_DIR=/home/sophie/Code/petsc 
--prefix=/home/sophie/Code/petsc-install --with-cc=mpicc --with-cxx=mpicxx 
--with-fc=0 --with-cuda=0 --with-openmp=0 --with-debugging=0 
--with-shared-libraries --with-64-bit-indices --download-kokkos 
--download-kokkos-kernels --download-boost --download-hdf5 --COPTFLAGS=-O3 
--CXXOPTFLAGS=-O3
[0]PETSC ERROR: #1 PetscOptionsDestroy() at 
/home/sophie/Code/petsc/src/sys/objects/options.c:178
[0]PETSC ERROR: #2 finalize() at 
/home/sophie/Workspace/xolotl-alphaZr-source/xolotl/solver/src/PetscSolver.cpp:484


WARNING! There are options you set that were not used!
WARNING! could be spelling mistake, etc!
There are 3 unused database options. They are:
Option left: name:-fieldsplit_0_pc_type value: sor source: code
Option left: name:-fieldsplit_1_pc_type value: redundant source: code
Option left: name:-pc_fieldsplit_detect_coupling (no value) source: code

[sophie-Precision-3580:87124] shmem: mmap: an error occurred while determining 
whether or not 
/tmp/ompi.sophie-Precision-3580.1000/jf.0/3451256832/shared_mem_cuda_pool.sophie-Precision-3580
 could be created.
[sophie-Precision-3580:87124] create_and_attach: unable to create shared memory 
BTL coordinating structure :: size 134217728 
Starting Xolotl (3.0.1-39-fdde1002)
Tue Dec 10 11:06:30 2024
NetworkHandler: Loaded network of 2066 DOF with: Vacancy Basal Interstitial 
MaterialHandler: The selected material is: AlphaZr with the following 
processes: noSolve reaction sink 
TemperatureHandler: Using the time profile defined in: temp.txt
Starting Xolotl (3.0.1-39-fdde1002)
Tue Dec 10 11:06:31 2024
NetworkHandler: Loaded network of 660 DOF with: Vacancy Basal Interstitial 
MaterialHandler: The selected material is: AlphaZr with the following 
processes: constant reaction sink 
TemperatureHandler: Using the time profile defined in: temp.txt
Starting Xolotl (3.0.1-39-fdde1002)
Tue Dec 10 11:06:31 2024
NetworkHandler: Loaded network of 668 DOF with: Vacancy Basal Interstitial 
MaterialHandler: The selected material is: AlphaZr with the following 
processes: constant reaction sink 
TemperatureHandler: Using the time profile defined in: temp.txt
Starting Xolotl (3.0.1-39-fdde1002)
Tue Dec 10 11:06:31 2024
NetworkHandler: Loaded network of 738 DOF with: Vacancy Basal Interstitial 
MaterialHandler: The selected material is: AlphaZr with the following 
processes: constant reaction sink 
TemperatureHandler: Using the time profile defined in: temp.txt
MultiXolotl: Restart file written to: xolotlRestart.txt
SolverHandler: 0D simulation
SolverHandler: 0D simulation
SolverHandler: 0D simulation
0 TS dt 1e-12 time 0.
0 TS dt 1e-12 time 0.
0 TS dt 1e-12 time 0.
0 TS dt 1e-12 time 0.
      TSAdapt basic arkimex 0:3 step   0 accepted t=0          + 1.000e-12 
dt=1.010e-12  wlte=2.4e-35  wltea=   -1 wlter=   -1
1 TS dt 1.01e-12 time 1e-12
0 TS dt 1e-12 time 0.
      TSAdapt basic arkimex 0:3 step   0 accepted t=0          + 1.000e-12 
dt=1.010e-12  wlte=1.93e-32  wltea=   -1 wlter=   -1
1 TS dt 1.01e-12 time 1e-12
0 TS dt 1e-12 time 0.
      TSAdapt basic arkimex 0:3 step   0 accepted t=0          + 1.000e-12 
dt=1.010e-12  wlte=5.33e-32  wltea=   -1 wlter=   -1
1 TS dt 1.01e-12 time 1e-12
0 TS dt 1.01e-12 time 1e-12
      TSAdapt basic arkimex 0:3 step   0 accepted t=1e-12      + 1.010e-12 
dt=1.020e-12  wlte=3.62e-35  wltea=   -1 wlter=   -1
1 TS dt 1.0201e-12 time 2.01e-12
      TSAdapt basic arkimex 0:3 step   1 accepted t=2.01e-12   + 1.020e-12 
dt=1.020e-12  wlte=3.02e-35  wltea=   -1 wlter=   -1
2 TS dt 1.0201e-12 time 3.0301e-12
0 TS dt 1.01e-12 time 1e-12
      TSAdapt basic arkimex 0:3 step   0 accepted t=1e-12      + 1.010e-12 
dt=1.020e-12  wlte=3.73e-32  wltea=   -1 wlter=   -1
1 TS dt 1.0201e-12 time 2.01e-12
      TSAdapt basic arkimex 0:3 step   1 accepted t=2.01e-12   + 1.020e-12 
dt=1.020e-12  wlte=9.74e-33  wltea=   -1 wlter=   -1
2 TS dt 1.0201e-12 time 3.0301e-12
0 TS dt 1.01e-12 time 1e-12
      TSAdapt basic arkimex 0:3 step   0 accepted t=1e-12      + 1.010e-12 
dt=1.020e-12  wlte=3.57e-32  wltea=   -1 wlter=   -1
1 TS dt 1.0201e-12 time 2.01e-12
      TSAdapt basic arkimex 0:3 step   1 accepted t=2.01e-12   + 1.020e-12 
dt=1.020e-12  wlte=8.88e-33  wltea=   -1 wlter=   -1
2 TS dt 1.0201e-12 time 3.0301e-12
0 TS dt 1.0201e-12 time 3.0301e-12
0 TS dt 1.0201e-12 time 3.0301e-12
0 TS dt 1.0201e-12 time 3.0301e-12
0 TS dt 1.0201e-12 time 3.0301e-12
      TSAdapt basic arkimex 0:3 step   0 accepted t=3.0301e-12 + 1.020e-12 
dt=1.030e-12  wlte=8.37e-35  wltea=   -1 wlter=   -1
1 TS dt 1.0303e-12 time 4.0502e-12
      TSAdapt basic arkimex 0:3 step   1 accepted t=4.0502e-12 + 1.030e-12 
dt=1.041e-12  wlte=1.2e-34  wltea=   -1 wlter=   -1
2 TS dt 1.0406e-12 time 5.0805e-12
0 TS dt 1.0201e-12 time 3.0301e-12
      TSAdapt basic arkimex 0:3 step   0 accepted t=3.0301e-12 + 1.020e-12 
dt=1.030e-12  wlte=7.51e-32  wltea=   -1 wlter=   -1
1 TS dt 1.0303e-12 time 4.0502e-12
      TSAdapt basic arkimex 0:3 step   1 accepted t=4.0502e-12 + 1.030e-12 
dt=1.041e-12  wlte=7.46e-32  wltea=   -1 wlter=   -1
2 TS dt 1.0406e-12 time 5.0805e-12
0 TS dt 1.0201e-12 time 3.0301e-12
      TSAdapt basic arkimex 0:3 step   0 accepted t=3.0301e-12 + 1.020e-12 
dt=1.030e-12  wlte=7.09e-32  wltea=   -1 wlter=   -1
1 TS dt 1.0303e-12 time 4.0502e-12
      TSAdapt basic arkimex 0:3 step   1 accepted t=4.0502e-12 + 1.030e-12 
dt=1.041e-12  wlte=1.42e-31  wltea=   -1 wlter=   -1
2 TS dt 1.0406e-12 time 5.0805e-12
0 TS dt 1.0406e-12 time 5.0805e-12
      TSAdapt basic arkimex 0:3 step   0 accepted t=5.0805e-12 + 1.041e-12 
dt=1.051e-12  wlte=9.02e-35  wltea=   -1 wlter=   -1
1 TS dt 1.05101e-12 time 6.12111e-12
0 TS dt 1.0406e-12 time 5.0805e-12
      TSAdapt basic arkimex 0:3 step   0 accepted t=5.0805e-12 + 1.041e-12 
dt=1.051e-12  wlte=5.04e-33  wltea=   -1 wlter=   -1
1 TS dt 1.05101e-12 time 6.12111e-12
0 TS dt 1.0406e-12 time 5.0805e-12
      TSAdapt basic arkimex 0:3 step   0 accepted t=5.0805e-12 + 1.041e-12 
dt=1.051e-12  wlte=4.45e-33  wltea=   -1 wlter=   -1
1 TS dt 1.05101e-12 time 6.12111e-12

Re: [petsc-users] "-ts_exact_final_time matchstep" leads to DIVERGED_STEP_REJECTED

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