Your message dated Tue, 08 Nov 2022 19:10:18 +0000
with message-id <e1ostzg-00eoy7...@fasolo.debian.org>
and subject line Bug#1023457: fixed in sundials 6.4.1+dfsg-1
has caused the Debian Bug report #1023457,
regarding sundials: FTBFS against hypre 2.26 and petsc 3.18
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
1023457: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1023457
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: sundials
Version: 5.8.0+dfsg-1
Severity: serious
Justification: FTBFS
Control: affects -1 libhypre-dev libpetsc-real3.18-dev
Testing the build of sundials against Hypre 2.6 and PETSc 3.18, both
available now in experimental, nvector/parhyp fails with the error
message:
[ 55%] Linking C executable ark_diurnal_kry_ph
cd
/home/drew/projects/misc/build/sundials-5.8.0+dfsg/debian/build/examples/arkode/C_parhyp
&& /usr/bin/cmake -E cmake_link_script
CMakeFiles/ark_diurnal_kry_ph.dir/link.txt --verbose=1
/usr/bin/mpicc -fcommon -Wl,-z,relro -Wl,-z,now
CMakeFiles/ark_diurnal_kry_ph.dir/ark_diurnal_kry_ph.c.o -o ark_diurnal_kry_ph
-Wl,-rpath,/home/drew/projects/misc/build/sundials-5.8.0+dfsg/debian/build/src/arkode:/home/drew/projects/misc/build/sundials-5.8.0+dfsg/debian/build/src/nvector/parhyp
../../../src/arkode/libsundials_arkode.so.4.8.0
../../../src/nvector/parhyp/libsundials_nvecparhyp.so.5.8.0 -lm
/usr/lib/x86_64-linux-gnu/librt.a -lHYPRE -lHYPRE
In file included from
/usr/lib/petscdir/petsc3.18/x86_64-linux-gnu-real/include/petscsys.h:1274,
from
/usr/lib/petscdir/petsc3.18/x86_64-linux-gnu-real/include/petscvec.h:9,
from
/usr/lib/petscdir/petsc3.18/x86_64-linux-gnu-real/include/petscmat.h:7,
from
/usr/lib/petscdir/petsc3.18/x86_64-linux-gnu-real/include/petscdm.h:6,
from
/home/drew/projects/misc/build/sundials-5.8.0+dfsg/examples/arkode/C_petsc/ark_petsc_ex25.c:32:
/home/drew/projects/misc/build/sundials-5.8.0+dfsg/examples/arkode/C_petsc/ark_petsc_ex25.c:
In function ‘main’:
/usr/lib/petscdir/petsc3.18/x86_64-linux-gnu-real/include/petscoptions.h:182:5:
error: expected expression before ‘do’
182 | do { \
| ^~
/home/drew/projects/misc/build/sundials-5.8.0+dfsg/examples/arkode/C_petsc/ark_petsc_ex25.c:112:10:
note: in expansion of macro ‘PetscOptionsBegin’
112 | ierr = PetscOptionsBegin(PETSC_COMM_WORLD,NULL,"Advection-reaction
options","");
| ^~~~~~~~~~~~~~~~~
Actually the error is specifically triggered from petscoptions.h, so
perhaps the problem is in petsc 3.18 not sundials. And line 182 in
petscoptions.h does look malformed. We'll close or move this bug
to petsc if that proves to be the source of the problem. Might have to
check the petsc source repo upstream.
-- System Information:
Debian Release: bookworm/sid
APT prefers unstable
APT policy: (500, 'unstable'), (1, 'experimental')
merged-usr: no
Architecture: amd64 (x86_64)
Foreign Architectures: i386
Kernel: Linux 6.0.0-2-amd64 (SMP w/8 CPU threads; PREEMPT)
Kernel taint flags: TAINT_PROPRIETARY_MODULE, TAINT_OOT_MODULE
Locale: LANG=en_AU.UTF-8, LC_CTYPE=en_AU.UTF-8 (charmap=UTF-8),
LANGUAGE=en_AU:en
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
--- End Message ---
--- Begin Message ---
Source: sundials
Source-Version: 6.4.1+dfsg-1
Done: Drew Parsons <dpars...@debian.org>
We believe that the bug you reported is fixed in the latest version of
sundials, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to 1023...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Drew Parsons <dpars...@debian.org> (supplier of updated sundials package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Mon, 07 Nov 2022 16:37:01 +0100
Source: sundials
Binary: libsundials-arkode5 libsundials-arkode5-dbgsym libsundials-cvode6
libsundials-cvode6-dbgsym libsundials-cvodes6 libsundials-cvodes6-dbgsym
libsundials-dev libsundials-fortran-dev libsundials-ida6
libsundials-ida6-dbgsym libsundials-idas5 libsundials-idas5-dbgsym
libsundials-kinsol6 libsundials-kinsol6-dbgsym libsundials-nvecparallel-hypre6
libsundials-nvecparallel-hypre6-dbgsym libsundials-nvecparallel-mpi6
libsundials-nvecparallel-mpi6-dbgsym libsundials-nvecparallel-openmp6
libsundials-nvecparallel-openmp6-dbgsym libsundials-nvecparallel-petsc6
libsundials-nvecparallel-petsc6-dbgsym libsundials-nvecparallel-pthread6
libsundials-nvecparallel-pthread6-dbgsym libsundials-nvecserial6
libsundials-nvecserial6-dbgsym libsundials-sunlinsol4
libsundials-sunlinsol4-dbgsym libsundials-sunmatrix4
libsundials-sunmatrix4-dbgsym
Architecture: source amd64
Version: 6.4.1+dfsg-1
Distribution: experimental
Urgency: medium
Maintainer: Debian Science Team
<debian-science-maintain...@lists.alioth.debian.org>
Changed-By: Drew Parsons <dpars...@debian.org>
Description:
libsundials-arkode5 - differential equation solver (SUNDIALS library)
libsundials-cvode6 - ordinary differential equation solver (SUNDIALS library)
libsundials-cvodes6 - ODE solver with sensistivity analysis (SUNDIALS library)
libsundials-dev - Package providing everything for SUNDIALS dev work
libsundials-fortran-dev - Package providing everything for SUNDIALS dev work.
Fortran files
libsundials-ida6 - differential-algebraic system solver (SUNDIALS library)
libsundials-idas5 - IDA solver with sensitivity capabilities (SUNDIALS library)
libsundials-kinsol6 - KINSOL solver (SUNDIALS library)
libsundials-nvecparallel-hypre6 - HYPRE vector operations library (SUNDIALS
library)
libsundials-nvecparallel-mpi6 - MPI vector operations library (SUNDIALS
library)
libsundials-nvecparallel-openmp6 - OpenMP vector operations library (SUNDIALS
library)
libsundials-nvecparallel-petsc6 - PETSc vector operations library (SUNDIALS
library)
libsundials-nvecparallel-pthread6 - Pthread vector operations library
(SUNDIALS library)
libsundials-nvecserial6 - Non-parallel vector operations library (SUNDIALS
library)
libsundials-sunlinsol4 - differential equation solver (SUNDIALS library)
libsundials-sunmatrix4 - differential equation solver (SUNDIALS library)
Closes: 997664 1023457
Changes:
sundials (6.4.1+dfsg-1) experimental; urgency=medium
.
* Team upload.
* New upstream release.
- supports PETSc 3.18 (Closes: #1023457)
- deprecates debian patch fix_linkage.cmake
- update component ABIs. Closes: #997664.
arkodelib 5
cvodelib 6
cvodeslib 6
idalib 6
idaslib 5
kinsollib 6
nveclib 6
sunmatrixlib 4
sunlinsollib 4
* simplify and drop superfluous lintian overrides
* debian/copyright: all source now uniformly covered by BSD-3-clause
license with LLNS Notice, 2002-2022, Lawrence Livermore National
Security and Southern Methodist University.
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