Your message dated Sun, 03 Nov 2024 15:05:26 +0000
with message-id <e1t7caq-00emy5...@fasolo.debian.org>
and subject line Bug#1086299: fixed in mshr 2019.2.0~git20230811.ff54a68+dfsg1-4
has caused the Debian Bug report #1086299,
regarding mshr: FTBFS: No rule to make target
'/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so', needed by
'libmshr.so.2019.2.0.dev0'. Stop.
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.)
--
1086299: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1086299
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: src:mshr
Version: 2019.2.0~git20230811.ff54a68+dfsg1-3
Severity: serious
Tags: ftbfs
Dear maintainer:
During a rebuild of all packages in unstable, your package failed to build:
--------------------------------------------------------------------------------
[...]
debian/rules build
py3versions: no X-Python3-Version in control file, using supported versions
dh build --buildsystem=cmake \
--with python3 \
--no-parallel
dh_update_autotools_config -O--buildsystem=cmake
dh_autoreconf -O--buildsystem=cmake
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<PKGBUILDDIR>>'
py3versions: no X-Python3-Version in control file, using supported versions
PETSC_DIR=/usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real
SLEPC_DIR=/usr/lib/slepcdir/slepc3.21/x86_64-linux-gnu-real dh_auto_configure --builddir=obj-x86_64-linux-gnu --
-D CMAKE_BUILD_TYPE:STRING=Release -D BUILD_SHARED_LIBS:BOOL=ON -D USE_SYSTEM_CGAL:BOOL=ON -D
USE_SYSTEM_TETGEN:BOOL=ON -D ENABLE_MSHRABLE:BOOL=ON -D CMAKE_SKIP_RPATH:BOOL=ON -D
CMAKE_INSTALL_RPATH_USE_LINK_PATH:BOOL=OFF -D INSTALL_LIB_DIR:PATH=lib/x86_64-linux-gnu -D
CMAKE_CXX_FLAGS:STRING="-fpermissive -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=.
-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection"
/<<PKGBUILDDIR>>/
cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake
-DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var
-DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON
-DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix
Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -D CMAKE_BUILD_TYPE:STRING=Release -D
BUILD_SHARED_LIBS:BOOL=ON -D USE_SYSTEM_CGAL:BOOL=ON -D USE_SYSTEM_TETGEN:BOOL=ON -D ENABLE_MSHRABLE:BOOL=ON -D
CMAKE_SKIP_RPATH:BOOL=ON -D CMAKE_INSTALL_RPATH_USE_LINK_PATH:BOOL=OFF -D INSTALL_LIB_DIR:PATH=lib/x86_64-linux-gnu -D
"CMAKE_CXX_FLAGS:STRING=-fpermissive -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong
-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection"
/<<BUILDDIR>>/mshr-2019.2.0\~git20230811.ff54a68\+dfsg1/ ..
-- The C compiler identification is GNU 14.2.0
-- The CXX compiler identification is GNU 14.2.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Targeting Unix Makefiles
-- Using /usr/bin/c++ compiler.
-- Found GMP: /usr/lib/x86_64-linux-gnu/libgmp.so
-- Found MPFR: /usr/lib/x86_64-linux-gnu/libmpfr.so
CMake Warning (dev) at
/usr/lib/x86_64-linux-gnu/cmake/CGAL/CGAL_SetupBoost.cmake:20 (find_package):
Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake
--help-policy CMP0167" for policy details. Use the cmake_policy command to
set the policy and suppress this warning.
Call Stack (most recent call first):
/usr/lib/x86_64-linux-gnu/cmake/CGAL/CGAL_SetupCGALDependencies.cmake:48
(include)
/usr/lib/x86_64-linux-gnu/cmake/CGAL/CGALConfig.cmake:169 (include)
CMakeLists.txt:17 (find_package)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found Boost: /usr/lib/x86_64-linux-gnu/cmake/Boost-1.83.0/BoostConfig.cmake (found suitable
version "1.83.0", minimum required is "1.72")
-- Boost include dirs: /usr/include
-- Boost libraries:
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE
-- Using gcc version 4 or later. Adding -frounding-math
CMake Warning (dev) at
/usr/share/cmake-3.30/Modules/FindPackageHandleStandardArgs.cmake:441 (message):
The package name passed to `find_package_handle_standard_args` (TETGEN)
does not match the name of the calling package (TetGen). This can lead to
problems in calling code that expects `find_package` result variables
(e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
cmake/FindTetGen.cmake:31 (FIND_PACKAGE_HANDLE_STANDARD_ARGS)
CMakeLists.txt:32 (find_package)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found TETGEN: /usr/lib/x86_64-linux-gnu/libtet.so
CMake Warning (dev) at CMakeLists.txt:59 (find_package):
Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake
--help-policy CMP0167" for policy details. Use the cmake_policy command to
set the policy and suppress this warning.
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found Boost: /usr/include (found version "1.83.0") found components: system
filesystem program_options
-- Found Eigen3: /usr/include/eigen3 (found suitable version "3.4.0", minimum required is
"3.1.0")
CMake Warning (dev) at
/usr/lib/x86_64-linux-gnu/cmake/dolfin/UseDOLFIN.cmake:34 (find_package):
Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake
--help-policy CMP0167" for policy details. Use the cmake_policy command to
set the policy and suppress this warning.
Call Stack (most recent call first):
CMakeLists.txt:95 (include)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1")
-- Checking for one of the modules 'craypetsc_real;petsc;PETSc'
-- Looking for sys/types.h
-- Looking for sys/types.h - found
-- Looking for stdint.h
-- Looking for stdint.h - found
-- Looking for stddef.h
-- Looking for stddef.h - found
-- Check size of PetscInt
-- Check size of PetscInt - failed
-- Checking for one of the modules 'crayslepc_real;slepc;SLEPc'
-- Testing disabled
-- Configuring done (1.2s)
-- Generating done (0.0s)
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY
CMAKE_INSTALL_LIBDIR
CMAKE_INSTALL_LOCALSTATEDIR
CMAKE_INSTALL_RUNSTATEDIR
CMAKE_INSTALL_SYSCONFDIR
FETCHCONTENT_FULLY_DISCONNECTED
-- Build files have been written to: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu
PETSC_DIR=/usr/lib/petscdir/petsc64-3.21/x86_64-linux-gnu-real SLEPC_DIR=/usr/lib/slepcdir/slepc64-3.21/x86_64-linux-gnu-real
dh_auto_configure --builddir=obj-x86_64-linux-gnu-64 -- -D CMAKE_BUILD_TYPE:STRING=Release -D BUILD_SHARED_LIBS:BOOL=ON -D
USE_SYSTEM_CGAL:BOOL=ON -D USE_SYSTEM_TETGEN:BOOL=ON -D ENABLE_MSHRABLE:BOOL=ON -D CMAKE_SKIP_RPATH:BOOL=ON -D
CMAKE_INSTALL_RPATH_USE_LINK_PATH:BOOL=OFF -D INSTALL_LIB_DIR:PATH=lib/x86_64-linux-gnu -D CMAKE_CXX_FLAGS:STRING="-fpermissive
-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat
-Werror=format-security -fcf-protection" /<<PKGBUILDDIR>>/ -DLIB_NAME_EXT="64"
-DDOLFIN_LIB_NAME_EXT="64"
cd obj-x86_64-linux-gnu-64 && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake
-DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var
-DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON
-DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix
Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -D CMAKE_BUILD_TYPE:STRING=Release -D
BUILD_SHARED_LIBS:BOOL=ON -D USE_SYSTEM_CGAL:BOOL=ON -D USE_SYSTEM_TETGEN:BOOL=ON -D ENABLE_MSHRABLE:BOOL=ON -D
CMAKE_SKIP_RPATH:BOOL=ON -D CMAKE_INSTALL_RPATH_USE_LINK_PATH:BOOL=OFF -D INSTALL_LIB_DIR:PATH=lib/x86_64-linux-gnu -D
"CMAKE_CXX_FLAGS:STRING=-fpermissive -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong
-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection"
/<<BUILDDIR>>/mshr-2019.2.0\~git20230811.ff54a68\+dfsg1/ -DLIB_NAME_EXT=64 -DDOLFIN_LIB_NAME_EXT=64 ..
-- The C compiler identification is GNU 14.2.0
-- The CXX compiler identification is GNU 14.2.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Targeting Unix Makefiles
-- Using /usr/bin/c++ compiler.
-- Found GMP: /usr/lib/x86_64-linux-gnu/libgmp.so
-- Found MPFR: /usr/lib/x86_64-linux-gnu/libmpfr.so
CMake Warning (dev) at
/usr/lib/x86_64-linux-gnu/cmake/CGAL/CGAL_SetupBoost.cmake:20 (find_package):
Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake
--help-policy CMP0167" for policy details. Use the cmake_policy command to
set the policy and suppress this warning.
Call Stack (most recent call first):
/usr/lib/x86_64-linux-gnu/cmake/CGAL/CGAL_SetupCGALDependencies.cmake:48
(include)
/usr/lib/x86_64-linux-gnu/cmake/CGAL/CGALConfig.cmake:169 (include)
CMakeLists.txt:17 (find_package)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found Boost: /usr/lib/x86_64-linux-gnu/cmake/Boost-1.83.0/BoostConfig.cmake (found suitable
version "1.83.0", minimum required is "1.72")
-- Boost include dirs: /usr/include
-- Boost libraries:
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE
-- Using gcc version 4 or later. Adding -frounding-math
CMake Warning (dev) at
/usr/share/cmake-3.30/Modules/FindPackageHandleStandardArgs.cmake:441 (message):
The package name passed to `find_package_handle_standard_args` (TETGEN)
does not match the name of the calling package (TetGen). This can lead to
problems in calling code that expects `find_package` result variables
(e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
cmake/FindTetGen.cmake:31 (FIND_PACKAGE_HANDLE_STANDARD_ARGS)
CMakeLists.txt:32 (find_package)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found TETGEN: /usr/lib/x86_64-linux-gnu/libtet.so
CMake Warning (dev) at CMakeLists.txt:59 (find_package):
Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake
--help-policy CMP0167" for policy details. Use the cmake_policy command to
set the policy and suppress this warning.
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found Boost: /usr/include (found version "1.83.0") found components: system
filesystem program_options
-- Found Eigen3: /usr/include/eigen3 (found suitable version "3.4.0", minimum required is
"3.1.0")
CMake Warning (dev) at
/usr/lib/x86_64-linux-gnu/cmake/dolfin/UseDOLFIN.cmake:34 (find_package):
Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake
--help-policy CMP0167" for policy details. Use the cmake_policy command to
set the policy and suppress this warning.
Call Stack (most recent call first):
CMakeLists.txt:95 (include)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1")
-- Checking for one of the modules 'craypetsc_real;petsc;PETSc'
-- Looking for sys/types.h
-- Looking for sys/types.h - found
-- Looking for stdint.h
-- Looking for stdint.h - found
-- Looking for stddef.h
-- Looking for stddef.h - found
-- Check size of PetscInt
-- Check size of PetscInt - failed
-- Checking for one of the modules 'crayslepc_real;slepc;SLEPc'
-- Testing disabled
-- Configuring done (1.2s)
-- Generating done (0.0s)
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY
CMAKE_INSTALL_LIBDIR
CMAKE_INSTALL_LOCALSTATEDIR
CMAKE_INSTALL_RUNSTATEDIR
CMAKE_INSTALL_SYSCONFDIR
FETCHCONTENT_FULLY_DISCONNECTED
-- Build files have been written to: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu-64
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
py3versions: no X-Python3-Version in control file, using supported versions
PETSC_DIR=/usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real
SLEPC_DIR=/usr/lib/slepcdir/slepc3.21/x86_64-linux-gnu-real dh_auto_build
--builddir=obj-x86_64-linux-gnu
cd obj-x86_64-linux-gnu && make -j1 "INSTALL=install
--strip-program=true" VERBOSE=1
make[2]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
/usr/bin/cmake -S"/<<PKGBUILDDIR>>" -B"/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu"
--check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles"
"/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu//CMakeFiles/progress.marks"
make -f CMakeFiles/Makefile2 all
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make -f CMakeFiles/mshr.dir/build.make CMakeFiles/mshr.dir/depend
make[4]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
cd "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/<<PKGBUILDDIR>>" "/<<PKGBUILDDIR>>"
"/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu" "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu" "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/mshr.dir/DependInfo.cmake"
"--color="
make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make -f CMakeFiles/mshr.dir/build.make CMakeFiles/mshr.dir/build
make[4]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
[ 4%] Building CXX object CMakeFiles/mshr.dir/src/ASCFileReader.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
-DHAS_SLEPC -DHAS_UMFPACK -DHAS_ZLIB -DNDEBUG -DTETLIBRARY -Dmshr_EXPORTS -I"/<<PKGBUILDDIR>>/include" -I/include -isystem
/usr/include/eigen3 -isystem /usr/lib/python3/dist-packages/ffc/backends/ufc -isystem /usr/include/hdf5/openmpi -isystem
/usr/lib/x86_64-linux-gnu/openmpi/include -isystem /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -isystem
/usr/lib/slepcdir/slepc3.21/x86_64-linux-gnu-real/include -isystem /usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real/include -fpermissive -g -O2
-ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security
-fcf-protection -O3 -DNDEBUG -std=c++17 -fPIC -MD -MT CMakeFiles/mshr.dir/src/ASCFileReader.cpp.o -MF
CMakeFiles/mshr.dir/src/ASCFileReader.cpp.o.d -o CMakeFiles/mshr.dir/src/ASCFileReader.cpp.o -c
"/<<PKGBUILDDIR>>/src/ASCFileReader.cpp"
[ 9%] Building CXX object CMakeFiles/mshr.dir/src/CSGCGALDomain2D.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
-DHAS_SLEPC -DHAS_UMFPACK -DHAS_ZLIB -DNDEBUG -DTETLIBRARY -Dmshr_EXPORTS -I"/<<PKGBUILDDIR>>/include" -I/include -isystem
/usr/include/eigen3 -isystem /usr/lib/python3/dist-packages/ffc/backends/ufc -isystem /usr/include/hdf5/openmpi -isystem
/usr/lib/x86_64-linux-gnu/openmpi/include -isystem /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -isystem
/usr/lib/slepcdir/slepc3.21/x86_64-linux-gnu-real/include -isystem /usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real/include -fpermissive -g -O2
-ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security
-fcf-protection -O3 -DNDEBUG -std=c++17 -fPIC -MD -MT CMakeFiles/mshr.dir/src/CSGCGALDomain2D.cpp.o -MF
CMakeFiles/mshr.dir/src/CSGCGALDomain2D.cpp.o.d -o CMakeFiles/mshr.dir/src/CSGCGALDomain2D.cpp.o -c
"/<<PKGBUILDDIR>>/src/CSGCGALDomain2D.cpp"
[ 13%] Building CXX object CMakeFiles/mshr.dir/src/CSGCGALDomain3D.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
-DHAS_SLEPC -DHAS_UMFPACK -DHAS_ZLIB -DNDEBUG -DTETLIBRARY -Dmshr_EXPORTS -I"/<<PKGBUILDDIR>>/include" -I/include -isystem
/usr/include/eigen3 -isystem /usr/lib/python3/dist-packages/ffc/backends/ufc -isystem /usr/include/hdf5/openmpi -isystem
/usr/lib/x86_64-linux-gnu/openmpi/include -isystem /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -isystem
/usr/lib/slepcdir/slepc3.21/x86_64-linux-gnu-real/include -isystem /usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real/include -fpermissive -g -O2
-ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security
-fcf-protection -O3 -DNDEBUG -std=c++17 -fPIC -MD -MT CMakeFiles/mshr.dir/src/CSGCGALDomain3D.cpp.o -MF
CMakeFiles/mshr.dir/src/CSGCGALDomain3D.cpp.o.d -o CMakeFiles/mshr.dir/src/CSGCGALDomain3D.cpp.o -c
"/<<PKGBUILDDIR>>/src/CSGCGALDomain3D.cpp"
In file included from /usr/include/CGAL/AABB_traits.h:19,
from /<<PKGBUILDDIR>>/src/CSGCGALDomain3D.cpp:57:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /<<PKGBUILDDIR>>/src/CSGCGALDomain3D.cpp:33:
/<<PKGBUILDDIR>>/src/Polyhedron_utils.h: In static member function ‘static bool
mshr::PolyhedronUtils::triangulate_polygon_3d(Polyhedron&, typename
Polyhedron::Halfedge_handle, bool, bool)’:
/<<PKGBUILDDIR>>/src/Polyhedron_utils.h:855:39: warning: ‘No_intersection_tag’
is deprecated [-Wdeprecated-declarations]
855 | typedef CGAL::No_intersection_tag Itag;
| ^~~~
In file included from
/usr/include/CGAL/Constrained_Delaunay_triangulation_2.h:20,
from /<<PKGBUILDDIR>>/src/Polyhedron_utils.h:32:
/usr/include/CGAL/Constrained_triangulation_2.h:49:24: note: declared here
49 | struct CGAL_DEPRECATED No_intersection_tag :
| ^~~~~~~~~~~~~~~~~~~
/usr/include/CGAL/Installation/internal/deprecation_warning.h: At global scope:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/AABB_traits.h>` is deprecated. Please use
`<CGAL/AABB_traits_3.h>` instead. ’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
[ 18%] Building CXX object CMakeFiles/mshr.dir/src/CSGCGALMeshGenerator2D.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
-DHAS_SLEPC -DHAS_UMFPACK -DHAS_ZLIB -DNDEBUG -DTETLIBRARY -Dmshr_EXPORTS -I"/<<PKGBUILDDIR>>/include" -I/include -isystem
/usr/include/eigen3 -isystem /usr/lib/python3/dist-packages/ffc/backends/ufc -isystem /usr/include/hdf5/openmpi -isystem
/usr/lib/x86_64-linux-gnu/openmpi/include -isystem /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -isystem
/usr/lib/slepcdir/slepc3.21/x86_64-linux-gnu-real/include -isystem /usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real/include -fpermissive -g -O2
-ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security
-fcf-protection -O3 -DNDEBUG -std=c++17 -fPIC -MD -MT CMakeFiles/mshr.dir/src/CSGCGALMeshGenerator2D.cpp.o -MF
CMakeFiles/mshr.dir/src/CSGCGALMeshGenerator2D.cpp.o.d -o CMakeFiles/mshr.dir/src/CSGCGALMeshGenerator2D.cpp.o -c
"/<<PKGBUILDDIR>>/src/CSGCGALMeshGenerator2D.cpp"
[ 22%] Building CXX object CMakeFiles/mshr.dir/src/CSGCGALMeshGenerator3D.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
-DHAS_SLEPC -DHAS_UMFPACK -DHAS_ZLIB -DNDEBUG -DTETLIBRARY -Dmshr_EXPORTS -I"/<<PKGBUILDDIR>>/include" -I/include -isystem
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/usr/lib/x86_64-linux-gnu/openmpi/include -isystem /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -isystem
/usr/lib/slepcdir/slepc3.21/x86_64-linux-gnu-real/include -isystem /usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real/include -fpermissive -g -O2
-ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security
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"/<<PKGBUILDDIR>>/src/CSGCGALMeshGenerator3D.cpp"
In file included from
/<<PKGBUILDDIR>>/src/Polyhedral_multicomponent_mesh_domain_with_features_3.h:23,
from /<<PKGBUILDDIR>>/src/CSGCGALMeshGenerator3D.cpp:42:
/<<PKGBUILDDIR>>/src/Polyhedron_utils.h: In static member function ‘static bool
mshr::PolyhedronUtils::triangulate_polygon_3d(Polyhedron&, typename
Polyhedron::Halfedge_handle, bool, bool)’:
/<<PKGBUILDDIR>>/src/Polyhedron_utils.h:855:39: warning: ‘No_intersection_tag’
is deprecated [-Wdeprecated-declarations]
855 | typedef CGAL::No_intersection_tag Itag;
| ^~~~
In file included from
/usr/include/CGAL/Constrained_Delaunay_triangulation_2.h:20,
from /<<PKGBUILDDIR>>/src/Polyhedron_utils.h:32:
/usr/include/CGAL/Constrained_triangulation_2.h:49:24: note: declared here
49 | struct CGAL_DEPRECATED No_intersection_tag :
| ^~~~~~~~~~~~~~~~~~~
[ 27%] Building CXX object CMakeFiles/mshr.dir/src/CSGGeometries3D.cpp.o
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"/<<PKGBUILDDIR>>/src/CSGGeometries3D.cpp"
[ 31%] Building CXX object CMakeFiles/mshr.dir/src/CSGGeometry.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
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-o CMakeFiles/mshr.dir/src/CSGGeometry.cpp.o -c "/<<PKGBUILDDIR>>/src/CSGGeometry.cpp"
[ 36%] Building CXX object CMakeFiles/mshr.dir/src/CSGOperators.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
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-o CMakeFiles/mshr.dir/src/CSGOperators.cpp.o -c "/<<PKGBUILDDIR>>/src/CSGOperators.cpp"
[ 40%] Building CXX object CMakeFiles/mshr.dir/src/CSGPrimitives2D.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
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"/<<PKGBUILDDIR>>/src/CSGPrimitives2D.cpp"
[ 45%] Building CXX object CMakeFiles/mshr.dir/src/CSGPrimitives3D.cpp.o
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"/<<PKGBUILDDIR>>/src/CSGPrimitives3D.cpp"
[ 50%] Building CXX object CMakeFiles/mshr.dir/src/DolfinMeshUtils.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
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-ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security
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[ 54%] Building CXX object CMakeFiles/mshr.dir/src/GlobalInitializer.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
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[ 59%] Building CXX object CMakeFiles/mshr.dir/src/MeshGenerator.cpp.o
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[ 63%] Building CXX object CMakeFiles/mshr.dir/src/Meshes.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
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[ 68%] Building CXX object CMakeFiles/mshr.dir/src/OFFFileReader.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
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[ 72%] Building CXX object CMakeFiles/mshr.dir/src/STLFileReader.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
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[ 77%] Building CXX object CMakeFiles/mshr.dir/src/SurfaceConsistency.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
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[ 81%] Building CXX object CMakeFiles/mshr.dir/src/SurfaceReconstruction.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
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"/<<PKGBUILDDIR>>/src/SurfaceReconstruction.cpp"
In file included from
/usr/include/CGAL/Surface_mesh_default_triangulation_3.h:21,
from /<<PKGBUILDDIR>>/src/SurfaceReconstruction.cpp:26:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Robust_circumcenter_traits_3.h:26,
from
/usr/include/CGAL/Surface_mesh_default_triangulation_3.h:27:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesh_vertex_base_3.h:20,
from
/usr/include/CGAL/Surface_mesh_default_triangulation_3.h:33:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from
/usr/include/CGAL/Complex_2_in_triangulation_vertex_base_3.h:24,
from /usr/include/CGAL/Surface_mesh_vertex_base_3.h:23:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesh_cell_base_3.h:20,
from
/usr/include/CGAL/Surface_mesh_default_triangulation_3.h:34:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from
/usr/include/CGAL/Complex_2_in_triangulation_cell_base_3.h:23,
from /usr/include/CGAL/Surface_mesh_cell_base_3.h:22:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/make_surface_mesh.h:20,
from /<<PKGBUILDDIR>>/src/SurfaceReconstruction.cpp:27:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesher_generator.h:21,
from /usr/include/CGAL/make_surface_mesh.h:23:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesher/Surface_mesher.h:28,
from /usr/include/CGAL/Surface_mesher_generator.h:23:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesher/Verbose_flag.h:21,
from /usr/include/CGAL/Surface_mesher/Surface_mesher.h:42:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesher/Types_generators.h:21,
from /usr/include/CGAL/Surface_mesher/Surface_mesher.h:43:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesher/Profile_counter.h:24,
from /usr/include/CGAL/Surface_mesher/Surface_mesher.h:44:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesher/Profile_timer.h:24,
from /usr/include/CGAL/Surface_mesher/Surface_mesher.h:45:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from
/usr/include/CGAL/Surface_mesher/Surface_mesher_manifold.h:22,
from /usr/include/CGAL/Surface_mesher_generator.h:24:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from
/usr/include/CGAL/Surface_mesher/Surface_mesher_regular_edges.h:21,
from
/usr/include/CGAL/Surface_mesher/Surface_mesher_manifold.h:26:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from
/usr/include/CGAL/Surface_mesher/Surface_mesher_edges_level.h:21,
from /usr/include/CGAL/Surface_mesher_generator.h:25:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from
/usr/include/CGAL/Surface_mesher/Surface_mesher_visitor.h:22,
from /usr/include/CGAL/Surface_mesher_generator.h:26:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from
/usr/include/CGAL/Surface_mesher/Surface_mesher_edges_level_visitor.h:22,
from /usr/include/CGAL/Surface_mesher_generator.h:27:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesh_traits_generator_3.h:20,
from /usr/include/CGAL/Surface_mesher_generator.h:28:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesher/Sphere_oracle_3.h:21,
from /usr/include/CGAL/Surface_mesh_traits_generator_3.h:22:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesher/Null_oracle_visitor.h:22,
from /usr/include/CGAL/Surface_mesher/Sphere_oracle_3.h:25:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from
/usr/include/CGAL/Surface_mesh_complex_2_in_triangulation_3.h:21,
from /usr/include/CGAL/Surface_mesher_generator.h:29:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Complex_2_in_triangulation_3.h:21,
from
/usr/include/CGAL/Surface_mesh_complex_2_in_triangulation_3.h:25:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesh_default_criteria_3.h:20,
from /usr/include/CGAL/make_surface_mesh.h:30:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Surface_mesher/Standard_criteria.h:22,
from /usr/include/CGAL/Surface_mesh_default_criteria_3.h:22:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from /usr/include/CGAL/Implicit_surface_3.h:20,
from /<<PKGBUILDDIR>>/src/SurfaceReconstruction.cpp:28:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
In file included from
/usr/include/CGAL/Surface_mesher/Implicit_surface_oracle_3.h:22,
from /usr/include/CGAL/Implicit_surface_3.h:25:
/usr/include/CGAL/Installation/internal/deprecation_warning.h:80:6: warning: #warning
"A deprecated header has been included." [-Wcpp]
80 | # warning "A deprecated header has been included."
| ^~~~~~~
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesh_default_triangulation_3.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Robust_circumcenter_traits_3.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesh_vertex_base_3.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header
`<CGAL/Complex_2_in_triangulation_vertex_base_3.h>` is deprecated. Additional
information: The 3D Mesh Generation package (see https://doc.cgal.org/latest/Mesh_3/)
should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesh_cell_base_3.h>` is deprecated.
Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Complex_2_in_triangulation_cell_base_3.h>`
is deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/make_surface_mesh.h>` is deprecated.
Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher_generator.h>` is deprecated.
Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher/Surface_mesher.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher/Verbose_flag.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher/Types_generators.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher/Profile_counter.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher/Profile_timer.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher/Surface_mesher_manifold.h>`
is deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header
`<CGAL/Surface_mesher/Surface_mesher_regular_edges.h>` is deprecated.
Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header
`<CGAL/Surface_mesher/Surface_mesher_edges_level.h>` is deprecated. Additional
information: The 3D Mesh Generation package (see https://doc.cgal.org/latest/Mesh_3/)
should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher/Surface_mesher_visitor.h>`
is deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header
`<CGAL/Surface_mesher/Surface_mesher_edges_level_visitor.h>` is deprecated.
Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesh_traits_generator_3.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher/Sphere_oracle_3.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher/Null_oracle_visitor.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header
`<CGAL/Surface_mesh_complex_2_in_triangulation_3.h>` is deprecated. Additional
information: The 3D Mesh Generation package (see https://doc.cgal.org/latest/Mesh_3/)
should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Complex_2_in_triangulation_3.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesh_default_criteria_3.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Surface_mesher/Standard_criteria.h>` is
deprecated. Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header `<CGAL/Implicit_surface_3.h>` is deprecated.
Additional information: The 3D Mesh Generation package (see
https://doc.cgal.org/latest/Mesh_3/) should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
/usr/include/CGAL/Installation/internal/deprecation_warning.h:81:54: note: ‘#pragma
message: Warning: The header
`<CGAL/Surface_mesher/Implicit_surface_oracle_3.h>` is deprecated. Additional
information: The 3D Mesh Generation package (see https://doc.cgal.org/latest/Mesh_3/)
should be used instead.’
81 | # pragma message (CGAL_INTERNAL_DEPRECATED_MESSAGE)
| ^
[ 86%] Building CXX object CMakeFiles/mshr.dir/src/TetgenMeshGenerator3D.cpp.o
/usr/bin/c++ -DCGAL_HEADER_ONLY -DDOLFIN_VERSION=\"2019.2.0.64.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH
-DHAS_SLEPC -DHAS_UMFPACK -DHAS_ZLIB -DNDEBUG -DTETLIBRARY -Dmshr_EXPORTS -I"/<<PKGBUILDDIR>>/include" -I/include -isystem
/usr/include/eigen3 -isystem /usr/lib/python3/dist-packages/ffc/backends/ufc -isystem /usr/include/hdf5/openmpi -isystem
/usr/lib/x86_64-linux-gnu/openmpi/include -isystem /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -isystem
/usr/lib/slepcdir/slepc3.21/x86_64-linux-gnu-real/include -isystem /usr/lib/petscdir/petsc3.21/x86_64-linux-gnu-real/include -fpermissive -g -O2
-ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security
-fcf-protection -O3 -DNDEBUG -std=c++17 -fPIC -MD -MT CMakeFiles/mshr.dir/src/TetgenMeshGenerator3D.cpp.o -MF
CMakeFiles/mshr.dir/src/TetgenMeshGenerator3D.cpp.o.d -o CMakeFiles/mshr.dir/src/TetgenMeshGenerator3D.cpp.o -c
"/<<PKGBUILDDIR>>/src/TetgenMeshGenerator3D.cpp"
make[4]: *** No rule to make target
'/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so', needed by
'libmshr.so.2019.2.0.dev0'. Stop.
make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[3]: *** [CMakeFiles/Makefile2:105: CMakeFiles/mshr.dir/all] Error 2
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[2]: *** [Makefile:139: all] Error 2
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
dh_auto_build: error: cd obj-x86_64-linux-gnu && make -j1 "INSTALL=install
--strip-program=true" VERBOSE=1 returned exit code 2
make[1]: *** [debian/rules:108: override_dh_auto_build] Error 25
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:92: build] Error 2
dpkg-buildpackage: error: debian/rules build subprocess returned exit status 2
--------------------------------------------------------------------------------
The above is just how the build ends and not necessarily the most relevant part.
If required, the full build log is available here:
https://people.debian.org/~sanvila/build-logs/202410/
About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.
If you could not reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.
If this is really a bug in one of the build-depends, please use
reassign and affects, so that this is still visible in the BTS web
page for this package.
Thanks.
--- End Message ---
--- Begin Message ---
Source: mshr
Source-Version: 2019.2.0~git20230811.ff54a68+dfsg1-4
Done: Francesco Ballarin <francesco.balla...@unicatt.it>
We believe that the bug you reported is fixed in the latest version of
mshr, 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 1086...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Francesco Ballarin <francesco.balla...@unicatt.it> (supplier of updated mshr
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: Sun, 03 Nov 2024 14:45:53 +0000
Source: mshr
Architecture: source
Version: 2019.2.0~git20230811.ff54a68+dfsg1-4
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Team
<debian-science-maintain...@lists.alioth.debian.org>
Changed-By: Francesco Ballarin <francesco.balla...@unicatt.it>
Closes: 1086299
Changes:
mshr (2019.2.0~git20230811.ff54a68+dfsg1-4) unstable; urgency=medium
.
* Bump Standards-Version to 4.7.0
* Force rebuild against OpenMPI 5. Closes: #1086299.
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