Any particular reason to use these flags? What clang version? OS? Best if you can send build logs [perhaps to petsc-maint]
Can you try a simpler build and see if it works: ./configure --with-mpi-dir=/PATH_TO/models/src/v2021.03-2.0.3-llvm --download-fblaslapack="$(DIR_SRC)/fblaslapack-$(FBLASLAPACK_VERSION).tar.gz" && make && make check or: ./configure --with-cc=clang --with-cxx=clang++ --with-fc=gfortran --download-mpich="$(DIR_SRC)/mpich-$(MPICH_VERSION).tar.gz" --download-fblaslapack="$(DIR_SRC)/fblaslapack-$(FBLASLAPACK_VERSION).tar.gz" && make && make check Satish On Thu, 20 Feb 2025, Michael Schaferkotter wrote: > build petsc-3.20.3 with llvm, clang, clang++, gfortran > > CFLAGS='-std=c++11' > CXXFLAGS='-std=c++11 -D_GLIBCXX_USE_CXX11_ABI=1' > LDLIBS += -lstdc++ > > $PETSC_ARCH arch-linux-c-opt > MPIF90 = ./models/src/v2021.03-2.0.3-llvm/bin/mpif90 > MPICC = ./models/src/v2021.03-2.0.3-llvm/bin/mpicc > CLANG = clang > FC = gfortran > > > Petsc libraries are built; > /models/src/v2021.03-2.0.3-llvm/lib/libpetsc.so@ > /models/src/v2021.03-2.0.3-llvm/lib/libpetsc.so.3.020@ > /models/src/v2021.03-2.0.3-llvm/lib/libpetsc.so.3.020.3* > > > The configure is this: > cd $(PETSC_SRC) && unset CXX CC FC F77 && $(PYTHON2) ./configure > --prefix=$(PREFIX) \ > --with-cc=clang \ > --with-cxx=clang++ \ > --with-fc=gfortran \ > --download-mpich="$(DIR_SRC)/mpich-$(MPICH_VERSION).tar.gz" \ > > --download-fblaslapack="$(DIR_SRC)/fblaslapack-$(FBLASLAPACK_VERSION).tar.gz" > \ > --download-sowing \ > --with-debugging=$(PETSC_DBG) \ > --with-shared-libraries=1 \ > CFLAGS='-std=c11' \ > CXXFLAGS='-std=c++11 -D_GLIBCXX_USE_CXX11_ABI=1' \ > CPPFLAGS='-D_GLIBCXX_USE_CXX11_ABI=1' \ > LDFLAGS='-L$(LLVM_LIB)' \ > LIBS='-lstdc++’ \ > --COPTFLAGS=$(COPTFLAGS) --CXXOPTFLAGS=$(CXXOPTFLAGS) > --FOPTFLAGS=$(FOPTFLAGS) > > > Here is the make: > > $(MAKE) -C $(PETSC_SRC) PETSC_DIR=$(PETSC_SRC) > PETSC_ARCH=$(PETSC_ARCH) all > > > Check-petsc is: > > $(MAKE) -C $(PETSC_SRC) PETSC_DIR=$(PETSC_SRC) > PETSC_ARCH=$(PETSC_ARCH) test > > Here is the log file for test: > > make[1]: Entering directory > '/models/src/v2021.03-2.0.3-llvm/build/petsc/petsc-3.20.3' > /usr/bin/python3 > /models/src/v2021.03-2.0.3-llvm/build/petsc/petsc-3.20.3/config/gmakegentest.py > --petsc-dir=/models/src/v2021.03-2.0.3-llvm/build/petsc/petsc-3.20.3 > --petsc-arch=arch-linux-c-opt --testdir=./arch-linux-c-opt/tests --srcdir > /models/src/v2021.03-2.0.3-llvm/build/petsc/petsc-3.20.3/src --pkg-pkgs "sys > vec mat dm ksp snes ts tao" > Using MAKEFLAGS: iw -- PETSC_ARCH=arch-linux-c-opt > PETSC_DIR=/models/src/v2021.03-2.0.3-llvm/build/petsc/petsc-3.20.3 > CC arch-linux-c-opt/tests/sys/classes/draw/tests/ex1.o > CLINKER arch-linux-c-opt/tests/sys/classes/draw/tests/ex1 > /opt/rh/gcc-toolset-12/root/usr/lib/gcc/x86_64-redhat-linux/12/../../../../bin/ld: > arch-linux-c-opt/lib/libpetsc.so: undefined reference to > `std::__cxx11::basic_ostringstream<char, std::char_traits<char>, > std::allocator<char> >::basic_ostringstream()' > /opt/rh/gcc-toolset-12/root/usr/lib/gcc/x86_64-redhat-linux/12/../../../../bin/ld: > arch-linux-c-opt/lib/libpetsc.so: undefined reference to > `std::__throw_bad_array_new_length()' > clang: error: linker command failed with exit code 1 (use -v to see > invocation) > make[1]: [gmakefile.test:273: > arch-linux-c-opt/tests/sys/classes/draw/tests/ex1] Error 1 (ignored) > > > There are many errors of the ilk: > > std::__cxx11::basic_ostringstream<char, std::char_traits<char>, > std::allocator<char> >::basic_ostringstream() > > [lib]$ nm -A libpetsc.so | grep basic_ostringstream > libpetsc.so: U > _ZNKSt7__cxx1119basic_ostringstreamIcSt11char_traitsIcESaIcEE3strEv@GLIBCXX_3.4.21 > libpetsc.so: U > _ZNSt7__cxx1119basic_ostringstreamIcSt11char_traitsIcESaIcEEC1Ev > libpetsc.so: U > _ZNSt7__cxx1119basic_ostringstreamIcSt11char_traitsIcESaIcEED1Ev@GLIBCXX_3.4.21 > > > I/m new to llvm and this is the first time to compile petsc.3.20.3 with llvm > compilers. > > Clearly something is amiss. > > Any ideas appreciated. > > Michael > > >
