Your message dated Fri, 30 Aug 2024 21:42:44 +0000
with message-id <e1sk9og-00c0hr...@fasolo.debian.org>
and subject line Bug#1079566: fixed in petsc 3.21.4+dfsg1-1exp2
has caused the Debian Bug report #1079566,
regarding petsc 3.21 fails to run build-time-tests
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.)
--
1079566: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1079566
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: petsc
Version: 3.21.4+dfsg1-1exp1
Severity: normal
Control: forwarded -1 https://gitlab.com/petsc/petsc/-/issues/1634
petsc 3.21 is failing to successfully run build-time tests
(with build dir identified by PETSC_ARCH at build time).
The check_build rule invokes testex19 in src/snes/tutorials,
which gets
/usr/bin/gmake --no-print-directory PETSC_ARCH=x86_64-linux-gnu-real-debug
PETSC_DIR=/projects/petsc/build/petsc ex19 > trashz 2>&1
gmake: [/projects/petsc/build/petsc/lib/petsc/conf/rules:49: ex19.PETSc] Error
2 (ignored)
*******************Error detected during compile or link!*******************
See https://petsc.org/release/faq/
/projects/petsc/build/petsc/src/snes/tutorials ex19
*********************************************************************************
gmake[1]: Entering directory '/projects/petsc/build/petsc/src/snes/tutorials'
mpicc -Wl,-z,relro -fPIC -g -O2 -Werror=implicit-function-declaration
-ffile-prefix-map=/projects/petsc/build/petsc=. -fstack-protector-strong
-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC
-I/projects/petsc/build/petsc/include
-I/projects/petsc/build/petsc/x86_64-linux-gnu-real-debug/include
-I/usr/include/hypre -I/usr/include/suitesparse -I/usr/include/superlu
-I/usr/include/superlu-dist -I/usr/include/trilinos -I/usr/include/scotch
-I/usr/include/hdf5/openmpi -Wdate-time -D_FORTIFY_SOURCE=2
-Wl,-export-dynamic ex19.c
-L/usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real-debug/lib
-L/usr/lib/x86_64-linux-gnu/hdf5/openmpi
-L/usr/lib/x86_64-linux-gnu/openmpi/lib
-L/usr/lib/x86_64-linux-gnu/openmpi/lib/fortran/gfortran
-L/usr/lib/gcc/x86_64-linux-gnu/14 -lpetsc_real -lHYPRE -lspqr -lumfpack -lamd
-lcholmod -lklu -ldmumps -lzmumps -lsmumps -lcmumps -lmumps_common -lpord
-lscalapack-openmpi -lsuperlu -lsuperlu_dist -ltrilinos_ml -lfftw3 -lfftw3_mpi
-llapack -lblas -ltrilinos_zoltan -lptesmumps -lptscotch -lptscotcherr -lhdf5
-lmpi -lm -lOpenCL -lyaml -lX11 -lmpi_usempif08 -lmpi_usempi_ignore_tkr
-lmpi_mpifh -lmpi -lopen-rte -lopen-pal -lhwloc -levent_core -levent_pthreads
-lgfortran -lm -lz -lgfortran -lm -lgfortran -lgcc_s -lquadmath -lstdc++ -o ex19
/usr/bin/ld: /tmp/ccuRH6Pr.o: in function `NonlinearGS':
./src/snes/tutorials/./src/snes/tutorials/ex19.c:392:(.text+0x26): undefined
reference to `petscstack'
The petscstack reference is not the error, it's just a symptom that
the libpetsc.so library in
/projects/petsc/build/petsc/x86_64-linux-gnu-real-debug/lib is not
being accessed.
We can see in the compile line that it's using the newly prepared
include files
-I/projects/petsc/build/petsc/x86_64-linux-gnu-real-debug/include,
which is what we want here.
But for the lib dir,
-L/usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real-debug/lib is being
used instead of
-L/projects/petsc/build/petsc/x86_64-linux-gnu-real-debug/lib.
Hence the error (the library is not yet installed in
/usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real-debug/lib).
This seems to be a regression in petsc 3.21. Build-time tests
previously passed for petsc 3.20.
--- End Message ---
--- Begin Message ---
Source: petsc
Source-Version: 3.21.4+dfsg1-1exp2
Done: Drew Parsons <dpars...@debian.org>
We believe that the bug you reported is fixed in the latest version of
petsc, 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 1079...@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 petsc 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: SHA512
Format: 1.8
Date: Fri, 30 Aug 2024 16:22:03 +0200
Source: petsc
Binary: libpetsc-complex-dev libpetsc-complex3.21 libpetsc-complex3.21-dbg
libpetsc-complex3.21-dbgsym libpetsc-complex3.21-dev libpetsc-real-dev
libpetsc-real3.21 libpetsc-real3.21-dbg libpetsc-real3.21-dbgsym
libpetsc-real3.21-dev libpetsc3.21-dev-common libpetsc3.21-dev-examples
libpetsc64-complex-dev libpetsc64-complex3.21 libpetsc64-complex3.21-dbg
libpetsc64-complex3.21-dbgsym libpetsc64-complex3.21-dev libpetsc64-real-dev
libpetsc64-real3.21 libpetsc64-real3.21-dbg libpetsc64-real3.21-dbgsym
libpetsc64-real3.21-dev petsc-dev petsc3.21-doc petsc64-dev
Architecture: source all amd64
Version: 3.21.4+dfsg1-1exp2
Distribution: experimental
Urgency: medium
Maintainer: Debian Science Maintainers
<debian-science-maintain...@lists.alioth.debian.org>
Changed-By: Drew Parsons <dpars...@debian.org>
Description:
libpetsc-complex-dev - Virtual package depending on latest PETSc development
package
libpetsc-complex3.21 - Shared libraries for version 3.21 of PETSc with Complex
Numbers
libpetsc-complex3.21-dbg - Debugging libraries for PETSc
libpetsc-complex3.21-dev - Static libraries, shared links, header files for
PETSc
libpetsc-real-dev - Virtual package depending on latest PETSc development
package
libpetsc-real3.21 - Shared libraries for version 3.21 of PETSc
libpetsc-real3.21-dbg - Debugging libraries for PETSc
libpetsc-real3.21-dev - Static libraries, shared links, header files for PETSc
libpetsc3.21-dev-common - Common header and support dev files for PETSc
libpetsc3.21-dev-examples - Static libraries, shared links, header files for
PETSc
libpetsc64-complex-dev - Latest 64-bit PETSc development package with complex
numbers
libpetsc64-complex3.21 - Shared libraries for version 3.21 of 64-bit PETSc
with Complex Nu
libpetsc64-complex3.21-dbg - Debugging libraries for 64-bit PETSc with Complex
Numbers
libpetsc64-complex3.21-dev - Development files for 64-bit PETSc with complex
numbers
libpetsc64-real-dev - Virtual package depending on latest 64-bit PETSc
development pack
libpetsc64-real3.21 - Shared libraries for version 3.21 of 64-bit PETSc
libpetsc64-real3.21-dbg - Debugging libraries for PETSc
libpetsc64-real3.21-dev - Static libraries, shared links, header files for
64-bit PETSc
petsc-dev - Virtual package depending on latest PETSc development package
petsc3.21-doc - Documentation and examples for PETSc
petsc64-dev - Virtual package depending on latest 64-bit PETSc development pack
Closes: 1079566
Changes:
petsc (3.21.4+dfsg1-1exp2) experimental; urgency=medium
.
* debian patch fix_build_tests_MR7789.patch applies upstream MR#7789
to reenable build tests. Closes: #1079566.
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